Note: the module "R" cannot be unloaded because it was not loaded. WARNING: ignoring environment value of R_HOME R Under development (unstable) (2026-08-15 r90413) -- "Unsuffered Consequences" Copyright (C) 2026 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. > (cargs <- commandArgs(trailingOnly=TRUE)) [1] "/scratch/th798/data.table-revdeps/2026-08-16/deps.csv" [2] "1314" [3] "/scratch/th798/data.table-revdeps/2026-08-16/data.table_release_1.18.4.tar.gz" [4] "/scratch/th798/data.table-revdeps/2026-08-16/data.table_master_1.18.99.813ed951c5bac35d0d31626cc7ab7e3192aec9f6.tar.gz" > if(length(cargs)==0){ + ## before running interactively, make sure to start emacs/R with + ## environment defined in /scratch/...check_one.sh, particularly + ## R_LIBS_USER=/tmp/... otherwise we get error when installing + ## data.table. + base <- "/scratch/th798/data.table-revdeps/*" + cargs <- c( + Sys.glob(file.path(base,"deps.csv")), + "9", + Sys.glob(file.path(base, "data.table_release_*tar.gz")), + Sys.glob(file.path(base, "data.table_master_*tar.gz")) + ) + } > names(cargs) <- c("deps.csv", "task.str", "release", "master") > dput(cargs) c(deps.csv = "/scratch/th798/data.table-revdeps/2026-08-16/deps.csv", task.str = "1314", release = "/scratch/th798/data.table-revdeps/2026-08-16/data.table_release_1.18.4.tar.gz", master = "/scratch/th798/data.table-revdeps/2026-08-16/data.table_master_1.18.99.813ed951c5bac35d0d31626cc7ab7e3192aec9f6.tar.gz" ) > (task.dir <- dirname(.libPaths()[1]))#should be /tmp/th798/slurmid/R-vers [1] "/tmp/th798/30958541/R-devel/1314" > if(requireNamespace("R.cache"))R.cache::getCachePath() Loading required namespace: R.cache Failed with error: 'there is no package called 'R.cache'' > task.id <- as.integer(cargs[["task.str"]]) > deps.df <- read.csv(cargs[["deps.csv"]]) > (deps.row <- deps.df[task.id,]) Package task.id Version 1314 restatapi 1314 0.25.0 > (rev.dep <- deps.row$Package) [1] "restatapi" > job.dir <- file.path(dirname(cargs[["deps.csv"]]), "tasks", task.id) > setwd(task.dir) > .libPaths() [1] "/tmp/th798/30958541/R-devel/1314/library" [2] "/projects/genomic-ml/R/R-devel/library" > local.CRAN <- "/projects/genomic-ml/CRAN" > cran.url <- paste0("file://", local.CRAN) > #this should be in ~/.Rprofile too. > options(repos=c(CRAN=cran.url)) > print(Sys.time()) [1] "2026-08-16 03:39:21 MST" > install.time <- system.time({ + install.packages(rev.dep, dep=TRUE) + }) Installing package into '/tmp/th798/30958541/R-devel/1314/library' (as 'lib' is unspecified) also installing the dependencies 'fs', 'R6', 'rappdirs', 'base64enc', 'cachem', 'fastmap', 'lifecycle', 'memoise', 'mime', 'sass', 'digest', 'cli', 'rlang', 'evaluate', 'highr', 'xfun', 'yaml', 'bslib', 'fontawesome', 'htmltools', 'jquerylib', 'jsonlite', 'tinytex', 'rjson', 'xml2', 'chron', 'knitr', 'rmarkdown', 'tinytest', 'remotes' * installing *source* package 'fs' ... ** this is package 'fs' version '2.1.0' ** package 'fs' successfully unpacked and MD5 sums checked ** using staged installation Found pkg-config cflags and libs! Using PKG_CFLAGS=-I/home/th798/.conda/envs/emacs1/include Using PKG_LIBS=-L/home/th798/.conda/envs/emacs1/lib -luv -lrt -ldl ** libs using C++ compiler: 'g++ (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c dir.cc -o dir.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c error.cc -o error.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c file.cc -o file.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fs.cc -o fs.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c getmode.cc -o getmode.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c id.cc -o id.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.cc -o init.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c link.cc -o link.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c path.cc -o path.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c utils.cc -o utils.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c unix/getmode.cc -o unix/getmode.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c bsd/setmode.c -o bsd/setmode.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c bsd/strmode.c -o bsd/strmode.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c bsd/reallocarray.c -o bsd/reallocarray.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o fs.so dir.o error.o file.o fs.o getmode.o id.o init.o link.o path.o utils.o unix/getmode.o bsd/setmode.o bsd/strmode.o bsd/reallocarray.o -L/home/th798/.conda/envs/emacs1/lib -luv -lrt -ldl installing to /tmp/th798/30958541/R-devel/1314/library/00LOCK-fs/00new/fs/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (fs) * installing *source* package 'R6' ... ** this is package 'R6' version '2.6.1' ** package 'R6' successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (R6) * installing *source* package 'rappdirs' ... ** this is package 'rappdirs' version '0.3.4' ** package 'rappdirs' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c win-path.c -o win-path.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o rappdirs.so init.o win-path.o installing to /tmp/th798/30958541/R-devel/1314/library/00LOCK-rappdirs/00new/rappdirs/libs ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (rappdirs) * installing *source* package 'base64enc' ... ** this is package 'base64enc' version '0.1-6' ** package 'base64enc' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c base64.c -o base64.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c dummy.c -o dummy.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c uriencode.c -o uriencode.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c utf8.c -o utf8.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o base64enc.so base64.o dummy.o uriencode.o utf8.o installing to /tmp/th798/30958541/R-devel/1314/library/00LOCK-base64enc/00new/base64enc/libs ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (base64enc) * installing *source* package 'fastmap' ... ** this is package 'fastmap' version '1.2.0' ** package 'fastmap' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' using C++ compiler: 'g++ (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-devel/include" -DNDEBUG -Ilib/ -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -DR_NO_REMAP -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fastmap.cpp -o fastmap.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Ilib/ -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o fastmap.so fastmap.o init.o installing to /tmp/th798/30958541/R-devel/1314/library/00LOCK-fastmap/00new/fastmap/libs ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (fastmap) * installing *source* package 'mime' ... ** this is package 'mime' version '0.13' ** package 'mime' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c rawmatch.c -o rawmatch.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o mime.so init.o rawmatch.o installing to /tmp/th798/30958541/R-devel/1314/library/00LOCK-mime/00new/mime/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (mime) * installing *source* package 'digest' ... ** this is package 'digest' version '0.6.39' ** package 'digest' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' using C++ compiler: 'g++ (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c SpookyV2.cpp -o SpookyV2.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c aes.c -o aes.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c blake3.c -o blake3.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c blake3_dispatch.c -o blake3_dispatch.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c blake3_portable.c -o blake3_portable.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c crc32.c -o crc32.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c crc32c.cpp -o crc32c.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c crc32c_portable.cpp -o crc32c_portable.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c digest.c -o digest.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c digest2int.c -o digest2int.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c md5.c -o md5.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c pmurhash.c -o pmurhash.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c raes.c -o raes.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c sha1.c -o sha1.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c sha2.c -o sha2.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c sha256.c -o sha256.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c spooky_serialize.cpp -o spooky_serialize.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c xxhash.c -o xxhash.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o digest.so SpookyV2.o aes.o blake3.o blake3_dispatch.o blake3_portable.o crc32.o crc32c.o crc32c_portable.o digest.o digest2int.o init.o md5.o pmurhash.o raes.o sha1.o sha2.o sha256.o spooky_serialize.o xxhash.o installing to /tmp/th798/30958541/R-devel/1314/library/00LOCK-digest/00new/digest/libs ** R ** demo ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (digest) * installing *source* package 'cli' ... ** this is package 'cli' version '3.6.6' ** package 'cli' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c ansi.c -o ansi.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c cleancall.c -o cleancall.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c diff.c -o diff.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c errors.c -o errors.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c glue.c -o glue.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c inst.c -o inst.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c keypress-unix.c -o keypress-unix.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c keypress-win.c -o keypress-win.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c keypress.c -o keypress.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c md5.c -o md5.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c progress-altrep.c -o progress-altrep.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c progress.c -o progress.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c sha1.c -o sha1.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c sha256.c -o sha256.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c thread.c -o thread.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c tty.c -o tty.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c utf8.c -o utf8.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c utils.c -o utils.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c vt.c -o vt.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c vtparse.c -o vtparse.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c vtparse_table.c -o vtparse_table.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c win-utf8.c -o win-utf8.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c winfiles.c -o winfiles.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c xxhash.c -o xxhash.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c xxhash2.c -o xxhash2.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o cli.so ansi.o cleancall.o diff.o errors.o glue.o init.o inst.o keypress-unix.o keypress-win.o keypress.o md5.o progress-altrep.o progress.o sha1.o sha256.o thread.o tty.o utf8.o utils.o vt.o vtparse.o vtparse_table.o win-utf8.o winfiles.o xxhash.o xxhash2.o -lpthread installing to /tmp/th798/30958541/R-devel/1314/library/00LOCK-cli/00new/cli/libs ** R ** exec ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (cli) * installing *source* package 'rlang' ... ** this is package 'rlang' version '1.2.0' ** package 'rlang' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I./rlang/ -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c capture.c -o capture.o touch internal.c /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I./rlang/ -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c internal.c -o internal.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I./rlang/ -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c rlang.c -o rlang.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I./rlang/ -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c version.c -o version.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o rlang.so capture.o internal.o rlang.o version.o installing to /tmp/th798/30958541/R-devel/1314/library/00LOCK-rlang/00new/rlang/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** 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 (rlang) * installing *source* package 'evaluate' ... ** this is package 'evaluate' version '1.0.5' ** package 'evaluate' successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (evaluate) * installing *source* package 'xfun' ... ** this is package 'xfun' version '0.57' ** package 'xfun' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c base64.c -o base64.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c rand_lcg.c -o rand_lcg.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o xfun.so base64.o init.o rand_lcg.o installing to /tmp/th798/30958541/R-devel/1314/library/00LOCK-xfun/00new/xfun/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (xfun) * installing *source* package 'yaml' ... ** this is package 'yaml' version '2.3.12' ** package 'yaml' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c api.c -o api.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c dumper.c -o dumper.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c emitter.c -o emitter.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c implicit.c -o implicit.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c loader.c -o loader.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c parser.c -o parser.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c r_emit.c -o r_emit.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c r_ext.c -o r_ext.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c r_parse.c -o r_parse.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c reader.c -o reader.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c scanner.c -o scanner.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I. -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c writer.c -o writer.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o yaml.so api.o dumper.o emitter.o implicit.o loader.o parser.o r_emit.o r_ext.o r_parse.o reader.o scanner.o writer.o installing to /tmp/th798/30958541/R-devel/1314/library/00LOCK-yaml/00new/yaml/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (yaml) * installing *source* package 'jsonlite' ... ** this is package 'jsonlite' version '2.0.0' ** package 'jsonlite' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c base64.c -o base64.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c collapse_array.c -o collapse_array.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c collapse_object.c -o collapse_object.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c collapse_pretty.c -o collapse_pretty.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c escape_chars.c -o escape_chars.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c integer64_to_na.c -o integer64_to_na.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c is_datelist.c -o is_datelist.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c is_recordlist.c -o is_recordlist.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c is_scalarlist.c -o is_scalarlist.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c modp_numtoa.c -o modp_numtoa.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c null_to_na.c -o null_to_na.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c num_to_char.c -o num_to_char.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c parse.c -o parse.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c prettify.c -o prettify.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c push_parser.c -o push_parser.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c r-base64.c -o r-base64.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c register.c -o register.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c row_collapse.c -o row_collapse.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c transpose_list.c -o transpose_list.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c validate.c -o validate.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c yajl/yajl.c -o yajl/yajl.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c yajl/yajl_alloc.c -o yajl/yajl_alloc.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c yajl/yajl_buf.c -o yajl/yajl_buf.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c yajl/yajl_encode.c -o yajl/yajl_encode.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c yajl/yajl_gen.c -o yajl/yajl_gen.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c yajl/yajl_lex.c -o yajl/yajl_lex.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c yajl/yajl_parser.c -o yajl/yajl_parser.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c yajl/yajl_tree.c -o yajl/yajl_tree.o ar rcs yajl/libstatyajl.a yajl/yajl.o yajl/yajl_alloc.o yajl/yajl_buf.o yajl/yajl_encode.o yajl/yajl_gen.o yajl/yajl_lex.o yajl/yajl_parser.o yajl/yajl_tree.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o jsonlite.so base64.o collapse_array.o collapse_object.o collapse_pretty.o escape_chars.o integer64_to_na.o is_datelist.o is_recordlist.o is_scalarlist.o modp_numtoa.o null_to_na.o num_to_char.o parse.o prettify.o push_parser.o r-base64.o register.o row_collapse.o transpose_list.o validate.o -Lyajl -lstatyajl installing to /tmp/th798/30958541/R-devel/1314/library/00LOCK-jsonlite/00new/jsonlite/libs ** R ** inst ** byte-compile and prepare package for lazy loading in method for 'asJSON' with signature '"AsIs"': no definition for class "AsIs" in method for 'asJSON' with signature '"ITime"': no definition for class "ITime" in method for 'asJSON' with signature '"hms"': no definition for class "hms" in method for 'asJSON' with signature '"json"': no definition for class "json" in method for 'asJSON' with signature '"integer64"': no definition for class "integer64" in method for 'asJSON' with signature '"pairlist"': no definition for class "pairlist" in method for 'asJSON' with signature '"blob"': no definition for class "blob" in method for 'asJSON' with signature '"scalar"': no definition for class "scalar" in method for 'asJSON' with signature '"sf"': no definition for class "sf" in method for 'asJSON' with signature '"sfc"': no definition for class "sfc" in method for 'asJSON' with signature '"vctrs_vctr"': no definition for class "vctrs_vctr" ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (jsonlite) * installing *source* package 'rjson' ... ** this is package 'rjson' version '0.2.23' ** package 'rjson' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' using C++ compiler: 'g++ (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c dump.cpp -o dump.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c parser.c -o parser.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c register.c -o register.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o rjson.so dump.o parser.o register.o installing to /tmp/th798/30958541/R-devel/1314/library/00LOCK-rjson/00new/rjson/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (rjson) * installing *source* package 'chron' ... ** this is package 'chron' version '2.3-62' ** package 'chron' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c chron_strs.c -o chron_strs.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c unpaste.c -o unpaste.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o chron.so chron_strs.o init.o unpaste.o installing to /tmp/th798/30958541/R-devel/1314/library/00LOCK-chron/00new/chron/libs ** R ** byte-compile and prepare package for lazy loading Warning in structure(.Data = "m/d/y", .Names = "dates") : Replacing special names '.Names' is deprecated; use 'names' instead. Warning in structure(.Data = c(1, 1, 1970), .Names = c("month", "day", "year")) : Replacing special names '.Names' is deprecated; use 'names' instead. Warning in structure(.Data = c(8035, 8180, 8220, 8285, 8365, 8394), format = structure(.Data = "m/d/y", : Replacing special names '.Names' is deprecated; use 'names' instead. ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (chron) * installing *source* package 'tinytest' ... ** this is package 'tinytest' version '1.4.3' ** package 'tinytest' successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (tinytest) * installing *source* package 'remotes' ... ** this is package 'remotes' version '2.5.0' ** package 'remotes' successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (remotes) * installing *source* package 'cachem' ... ** this is package 'cachem' version '1.1.0' ** package 'cachem' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c cache.c -o cache.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o cachem.so cache.o init.o installing to /tmp/th798/30958541/R-devel/1314/library/00LOCK-cachem/00new/cachem/libs ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (cachem) * installing *source* package 'lifecycle' ... ** this is package 'lifecycle' version '1.0.5' ** package 'lifecycle' successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (lifecycle) * installing *source* package 'highr' ... ** this is package 'highr' version '0.12' ** package 'highr' successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (highr) * installing *source* package 'htmltools' ... ** this is package 'htmltools' version '0.5.9' ** package 'htmltools' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c template.c -o template.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o htmltools.so init.o template.o installing to /tmp/th798/30958541/R-devel/1314/library/00LOCK-htmltools/00new/htmltools/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** 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 (htmltools) * installing *source* package 'tinytex' ... ** this is package 'tinytex' version '0.59' ** package 'tinytex' successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (tinytex) * installing *source* package 'xml2' ... ** this is package 'xml2' version '1.5.2' ** package 'xml2' successfully unpacked and MD5 sums checked ** using staged installation Found pkg-config cflags and libs! Using PKG_CFLAGS=-I/home/th798/.conda/envs/emacs1/include/libxml2 -I/home/th798/.conda/envs/emacs1/include Using PKG_LIBS=-L/home/th798/.conda/envs/emacs1/lib -lxml2 -L/home/th798/.conda/envs/emacs1/lib -lz -L/home/th798/.conda/envs/emacs1/lib -llzma -lpthread -L/home/th798/.conda/envs/emacs1/lib -L/home/th798/.conda/envs/emacs1/lib -licui18n -licuuc -licudata -lm -ldl ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' using C++ compiler: 'g++ (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include/libxml2 -I/home/th798/.conda/envs/emacs1/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c connection.cpp -o connection.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include/libxml2 -I/home/th798/.conda/envs/emacs1/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include/libxml2 -I/home/th798/.conda/envs/emacs1/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c xml2_doc.cpp -o xml2_doc.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include/libxml2 -I/home/th798/.conda/envs/emacs1/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c xml2_init.c -o xml2_init.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include/libxml2 -I/home/th798/.conda/envs/emacs1/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c xml2_namespace.cpp -o xml2_namespace.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include/libxml2 -I/home/th798/.conda/envs/emacs1/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c xml2_node.cpp -o xml2_node.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include/libxml2 -I/home/th798/.conda/envs/emacs1/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c xml2_output.cpp -o xml2_output.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include/libxml2 -I/home/th798/.conda/envs/emacs1/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c xml2_schema.cpp -o xml2_schema.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include/libxml2 -I/home/th798/.conda/envs/emacs1/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c xml2_url.cpp -o xml2_url.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-devel/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include/libxml2 -I/home/th798/.conda/envs/emacs1/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c xml2_xpath.cpp -o xml2_xpath.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o xml2.so connection.o init.o xml2_doc.o xml2_init.o xml2_namespace.o xml2_node.o xml2_output.o xml2_schema.o xml2_url.o xml2_xpath.o -L/home/th798/.conda/envs/emacs1/lib -lxml2 -L/home/th798/.conda/envs/emacs1/lib -lz -L/home/th798/.conda/envs/emacs1/lib -llzma -lpthread -L/home/th798/.conda/envs/emacs1/lib -L/home/th798/.conda/envs/emacs1/lib -licui18n -licuuc -licudata -lm -ldl installing to /tmp/th798/30958541/R-devel/1314/library/00LOCK-xml2/00new/xml2/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (xml2) * installing *source* package 'memoise' ... ** this is package 'memoise' version '2.0.1' ** package 'memoise' successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (memoise) * installing *source* package 'sass' ... ** this is package 'sass' version '0.4.10' ** package 'sass' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' using C++ compiler: 'g++ (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I./libsass/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c compile.c -o compile.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-devel/include" -DNDEBUG -I./libsass/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.cpp -o init.o MAKEFLAGS= CC="/packages/gcc/12.2.0-nnbserq/bin/gcc" CFLAGS="-I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include " CXX="/packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20" AR="ar" LDFLAGS="-L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64" make -C libsass make[1]: Entering directory '/tmp/th798/30958541/Rtmp3xsE3a/R.INSTALL3c4dd365744bb3/sass/src/libsass' /packages/gcc/12.2.0-nnbserq/bin/gcc -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -I ./include -fPIC -c -o src/cencode.o src/cencode.c /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/ast.o src/ast.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_values.o src/ast_values.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_supports.o src/ast_supports.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_sel_cmp.o src/ast_sel_cmp.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_sel_unify.o src/ast_sel_unify.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_sel_super.o src/ast_sel_super.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_sel_weave.o src/ast_sel_weave.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_selectors.o src/ast_selectors.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/context.o src/context.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/constants.o src/constants.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_utils.o src/fn_utils.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_miscs.o src/fn_miscs.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_maps.o src/fn_maps.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_lists.o src/fn_lists.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_colors.o src/fn_colors.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_numbers.o src/fn_numbers.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_strings.o src/fn_strings.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_selectors.o src/fn_selectors.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/color_maps.o src/color_maps.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/environment.o src/environment.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_fwd_decl.o src/ast_fwd_decl.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/bind.o src/bind.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o 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-I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/memory/shared_ptr.o src/memory/shared_ptr.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/utf8_string.o src/utf8_string.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/base64vlq.o src/base64vlq.cpp mkdir lib ar rcvs lib/libsass.a src/cencode.o src/ast.o src/ast_values.o src/ast_supports.o src/ast_sel_cmp.o src/ast_sel_unify.o src/ast_sel_super.o src/ast_sel_weave.o src/ast_selectors.o src/context.o src/constants.o src/fn_utils.o src/fn_miscs.o src/fn_maps.o src/fn_lists.o src/fn_colors.o src/fn_numbers.o src/fn_strings.o src/fn_selectors.o src/color_maps.o src/environment.o src/ast_fwd_decl.o src/bind.o src/file.o src/util.o src/util_string.o src/json.o src/units.o src/values.o src/plugins.o src/source.o src/position.o src/lexer.o src/parser.o src/parser_selectors.o src/prelexer.o src/eval.o src/eval_selectors.o src/expand.o src/listize.o src/cssize.o src/extender.o src/extension.o src/stylesheet.o src/output.o src/inspect.o src/emitter.o src/check_nesting.o src/remove_placeholders.o src/sass.o src/sass_values.o src/sass_context.o src/sass_functions.o src/sass2scss.o src/backtrace.o src/operators.o src/ast2c.o src/c2ast.o src/to_value.o src/source_map.o src/error_handling.o src/memory/allocator.o src/memory/shared_ptr.o src/utf8_string.o src/base64vlq.o a - src/cencode.o a - src/ast.o a - src/ast_values.o a - src/ast_supports.o a - src/ast_sel_cmp.o a - src/ast_sel_unify.o a - src/ast_sel_super.o a - src/ast_sel_weave.o a - src/ast_selectors.o a - src/context.o a - src/constants.o a - src/fn_utils.o a - src/fn_miscs.o a - src/fn_maps.o a - src/fn_lists.o a - src/fn_colors.o a - src/fn_numbers.o a - src/fn_strings.o a - src/fn_selectors.o a - src/color_maps.o a - src/environment.o a - src/ast_fwd_decl.o a - src/bind.o a - src/file.o a - src/util.o a - src/util_string.o a - src/json.o a - src/units.o a - src/values.o a - src/plugins.o a - src/source.o a - src/position.o a - src/lexer.o a - src/parser.o a - src/parser_selectors.o a - src/prelexer.o a - src/eval.o a - src/eval_selectors.o a - src/expand.o a - src/listize.o a - src/cssize.o a - src/extender.o a - src/extension.o a - src/stylesheet.o a - src/output.o a - src/inspect.o a - src/emitter.o a - src/check_nesting.o a - src/remove_placeholders.o a - src/sass.o a - src/sass_values.o a - src/sass_context.o a - src/sass_functions.o a - src/sass2scss.o a - src/backtrace.o a - src/operators.o a - src/ast2c.o a - src/c2ast.o a - src/to_value.o a - src/source_map.o a - src/error_handling.o a - src/memory/allocator.o a - src/memory/shared_ptr.o a - src/utf8_string.o a - src/base64vlq.o make[1]: Leaving directory '/tmp/th798/30958541/Rtmp3xsE3a/R.INSTALL3c4dd365744bb3/sass/src/libsass' /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o sass.so compile.o init.o ./libsass/lib/libsass.a rm -f libsass/lib/libsass.a installing to /tmp/th798/30958541/R-devel/1314/library/00LOCK-sass/00new/sass/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (sass) * installing *source* package 'fontawesome' ... ** this is package 'fontawesome' version '0.5.3' ** package 'fontawesome' successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (fontawesome) * installing *source* package 'jquerylib' ... ** this is package 'jquerylib' version '0.1.4' ** package 'jquerylib' successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (jquerylib) * installing *source* package 'knitr' ... ** this is package 'knitr' version '1.51' ** package 'knitr' successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (knitr) * installing *source* package 'restatapi' ... ** this is package 'restatapi' version '0.25.0' ** package 'restatapi' successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (restatapi) * installing *source* package 'bslib' ... ** this is package 'bslib' version '0.10.0' ** package 'bslib' successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (bslib) * installing *source* package 'rmarkdown' ... ** this is package 'rmarkdown' version '2.31' ** package 'rmarkdown' successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (rmarkdown) > cat("Time to install revdep:\n") Time to install revdep: > print(install.time) user system elapsed 235.365 18.602 330.868 > print(Sys.time()) [1] "2026-08-16 03:44:52 MST" > (pkg_Version.tar.gz <- paste0(rev.dep,"_", deps.row[,"Version"], ".tar.gz")) [1] "restatapi_0.25.0.tar.gz" > (pkg.tar.gz <- file.path(local.CRAN, "src", "contrib", pkg_Version.tar.gz)) [1] "/projects/genomic-ml/CRAN/src/contrib/restatapi_0.25.0.tar.gz" > (rev.dep.release.tar.gz <- normalizePath(pkg.tar.gz, mustWork=TRUE)) [1] "/projects/genomic-ml/CRAN/src/contrib/restatapi_0.25.0.tar.gz" > pkg.Rcheck <- paste0(rev.dep, ".Rcheck") > > proj.dir <- "~/genomic-ml/data.table-revdeps" > source(file.path(proj.dir, "myStatus.R")) > Rvers <- gsub("[()]", "", gsub(" ", "_", R.version[["version.string"]])) > dir.create(Rvers, showWarnings=FALSE) > Rcheck.list <- list() > for(dt.version.short in c("release", "master")){ + dt.tar.gz <- cargs[[dt.version.short]] + dt.version <- gsub(".tar.gz|/.*?_", "", dt.tar.gz) + print(Sys.time()) + install.packages(dt.tar.gz, repos=NULL) + print(Sys.time()) + check.cmd <- get_check_cmd(rev.dep.release.tar.gz) + system(check.cmd) + print(Sys.time()) + dest.Rcheck <- file.path( + Rvers, + paste0(dt.version, ".Rcheck")) + unlink(dest.Rcheck, recursive=TRUE) + file.rename(pkg.Rcheck, dest.Rcheck) + Rcheck.list[[dt.version]] <- file.path(dest.Rcheck, "00check.log") + } [1] "2026-08-16 03:44:52 MST" Installing package into '/tmp/th798/30958541/R-devel/1314/library' (as 'lib' is unspecified) * installing *source* package 'data.table' ... ** this is package 'data.table' version '1.18.4' ** package 'data.table' successfully unpacked and MD5 sums checked ** using staged installation zlib 1.2.13 is available ok * checking if R installation supports OpenMP without any extra hints... yes ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c assign.c -o assign.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c between.c -o between.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c bmerge.c -o bmerge.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c chmatch.c -o chmatch.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c cj.c -o cj.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c coalesce.c -o coalesce.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c dogroups.c -o dogroups.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fastmean.c -o fastmean.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fcast.c -o fcast.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fifelse.c -o fifelse.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fmelt.c -o fmelt.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c forder.c -o forder.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c frank.c -o frank.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fread.c -o fread.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c freadR.c -o freadR.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c froll.c -o froll.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c frollR.c -o frollR.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c frolladaptive.c -o frolladaptive.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c frollapply.c -o frollapply.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fsort.c -o fsort.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fwrite.c -o fwrite.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fwriteR.c -o fwriteR.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c gsumm.c -o gsumm.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c hash.c -o hash.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c idatetime.c -o idatetime.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c ijoin.c -o ijoin.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c inrange.c -o inrange.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c mergelist.c -o mergelist.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c nafill.c -o nafill.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c negate.c -o negate.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c nqrecreateindices.c -o nqrecreateindices.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c openmp-utils.c -o openmp-utils.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c programming.c -o programming.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c quickselect.c -o quickselect.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c rbindlist.c -o rbindlist.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c reorder.c -o reorder.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c shellsort.c -o shellsort.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c shift.c -o shift.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c snprintf.c -o snprintf.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c subset.c -o subset.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c transpose.c -o transpose.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c types.c -o types.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c uniqlist.c -o uniqlist.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c utils.c -o utils.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c vecseq.c -o vecseq.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c wrappers.c -o wrappers.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o data.table.so assign.o between.o bmerge.o chmatch.o cj.o coalesce.o dogroups.o fastmean.o fcast.o fifelse.o fmelt.o forder.o frank.o fread.o freadR.o froll.o frollR.o frolladaptive.o frollapply.o fsort.o fwrite.o fwriteR.o gsumm.o hash.o idatetime.o ijoin.o init.o inrange.o mergelist.o nafill.o negate.o nqrecreateindices.o openmp-utils.o programming.o quickselect.o rbindlist.o reorder.o shellsort.o shift.o snprintf.o subset.o transpose.o types.o uniqlist.o utils.o vecseq.o wrappers.o -fvisibility=hidden -fopenmp -L/home/th798/.conda/envs/emacs1/lib -lz PKG_CFLAGS = -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include PKG_LIBS = -fvisibility=hidden -fopenmp -L/home/th798/.conda/envs/emacs1/lib -lz if [ "data.table.so" != "data_table.so" ]; then mv data.table.so data_table.so; fi if [ "" != "Windows_NT" ] && [ `uname -s` = 'Darwin' ]; then install_name_tool -id data_table.so data_table.so; fi installing to /tmp/th798/30958541/R-devel/1314/library/00LOCK-data.table/00new/data.table/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (data.table) [1] "2026-08-16 03:45:18 MST" * using log directory '/tmp/th798/30958541/R-devel/1314/restatapi.Rcheck' * using R Under development (unstable) (2026-08-15 r90413) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Spack GCC) 12.2.0 GNU Fortran (Spack GCC) 12.2.0 * running under: Red Hat Enterprise Linux 8.10 (Ootpa) * using session charset: ASCII * current time: 2026-08-16 10:45:19 UTC * checking for file 'restatapi/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'restatapi' version '0.25.0' * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package 'restatapi' can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking code files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking loading without being on the library search path ... OK * checking whether startup messages can be suppressed ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking examples ... OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... Running 'tinytest.R' ERROR Running the tests in 'tests/tinytest.R' failed. Complete output: > if ( requireNamespace("tinytest", quietly=TRUE) ){ + home <- length(unclass(packageVersion("restatapi"))[[1]]) == 4 + tinytest::test_package("restatapi", at_home = home) + } restatapi: - version 0.25.0 - config file with the API version 2 loaded from GitHub (the 'current' API version number is 2). - 4 from the 64 cores are used for parallel computing, can be changed with 'options(restatapi_cores=...)' - 'auto' method will be used for file download, can be changed with 'options(restatapi_dmethod=...)' - the Table of contents (TOC) was not pre-loaded into the deafult cache ('.restatapi_env'). test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests clean_restatapi_cache - All objects (outside of 'cfg', 'rav', 'cc' and 'dmethod') are removed from '.restatapi_env'. test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml get_eurostat_toc - Warning by the download of the xml version of the TOC file: URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached readBin(3, "raw", 65536) get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. test_restatapi.R.............. 0 tests get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=en trying URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=en' downloaded 1.9 MB get_eurostat_toc - The TOC was cached in memory ('toc.txt.en' in '.restatapi_env'). test_restatapi.R.............. 0 tests get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml get_eurostat_toc - Warning by the download of the xml version of the TOC file: URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached readBin(3, "raw", 65536) get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. test_restatapi.R.............. 0 tests test_restatapi.R.............. 1 tests OK test_restatapi.R.............. 1 tests OK get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml get_eurostat_toc - Warning by the download of the xml version of the TOC file: URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached readBin(3, "raw", 65536) get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. test_restatapi.R.............. 1 tests OK get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml get_eurostat_toc - Warning by the download of the xml version of the TOC file: URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached readBin(3, "raw", 65536) get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. test_restatapi.R.............. 1 tests OK get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml get_eurostat_toc - Warning by the download of the xml version of the TOC file: URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached readBin(3, "raw", 65536) get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. test_restatapi.R.............. 1 tests OK test_restatapi.R.............. 1 tests OK test_restatapi.R.............. 1 tests OK trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/text?references=children' test_restatapi.R.............. 2 tests OK get_eurostat_dsd - API version:2 get_eurostat_dsd - Trying to download the DSD from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/NAMA_10_GDP?references=children trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/NAMA_10_GDP?references=children' downloaded 3.4 MB get_eurostat_dsd - class(temp): character - is.na(temp): FALSE - file.size(temp): 3591544 - temp: /tmp/th798/30958541/RtmpDArLUa/file3de23d2489184a Trying to extract the DSD from: /tmp/th798/30958541/RtmpDArLUa/file3de23d2489184a get_eurostat_dsd - concepts:freq,unit,na_item,geo,OBS_FLAG,CONF_STATUS extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="FREQ"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="FREQ"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="UNIT"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="UNIT"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="NA_ITEM"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="NA_ITEM"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="GEO"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="GEO"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="OBS_FLAG"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="OBS_FLAG"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="CONF_STATUS"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="CONF_STATUS"]/s:Code/c:Name[@xml:lang="en"] get_eurostat_dsd - DSD NULL:FALSE get_eurostat_dsd - Trying to download the CC from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/NAMA_10_GDP trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/NAMA_10_GDP' Content type 'application/vnd.sdmx.structure+xml;version=2.1' length 5597 bytes ================================================== downloaded 5597 bytes get_eurostat_dsd - Trying to extract the CC from: /tmp/th798/30958541/RtmpDArLUa/file3de23d4ec52724 character number of nodes: 5 number of cores: 2 get_eurostat_dsd - The DSD of the NAMA_10_GDP dataset was cached in memory ('NAMA_10_GDP.en.dsd' in '.restatapi_env'). test_restatapi.R.............. 2 tests OK test_restatapi.R.............. 5 tests OK test_restatapi.R.............. 5 tests OK test_restatapi.R.............. 5 tests OK test_restatapi.R.............. 5 tests OK get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: htec_cis3 get_eurostat_data - select_freq: get_eurostat_data - Trying to get from cache: b_htec_cis3-2026.08.16-1-1 get_eurostat_bulk - API version:2 get_eurostat_bulk - class of id, cache, update_cache, cache_dir, compress_file, stringsAsFactors, keep_flags, check_toc, melt, verbose: character - logical -logical - NULL - logical - logical - logical - logical - logical - logical get_eurostat_raw - API version:2 get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/htec_cis3?format=TSV&compressed=true get_eurostat_raw - class(raw): data.tabledata.frame get_eurostat_raw - caching in raw: FALSE get_eurostat_raw - local filter: FALSE get_eurostat_raw - called from: restatapi::get_eurostat_rawidtxtcacheupdate_cachecache_dircompress_filestringsAsFactorskeep_flagscheck_tocTRUEverbose get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE get_eurostat_data - The data was downloaded with bulk download. get_eurostat_data - bulk restat - nrow:1006; ncol:7; colnames:indic_in/nace_r1/unit/geo/time/values/flags get_eurostat_data - cflags:TRUE get_eurostat_data - restat - nrow:1006; ncol:7; colnames:indic_in/nace_r1/unit/geo/time/values/flags get_eurostat_data - processed restat - nrow:1006; ncol:7; colnames:indic_in/nace_r1/unit/geo/time/values/flags get_eurostat_data - The data was cached in memory ('b_htec_cis3-2026.08.16-1-1' in '.restatapi_env'). get_eurostat_data - restat NULL?:FALSE id: htec_cis3 filters: date filter: test_restatapi.R.............. 5 tests OK test_restatapi.R.............. 5 tests OK get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: htec_cis3 get_eurostat_data - select_freq: get_eurostat_data - Trying to get from cache: b_htec_cis3-2026.08.16-0-0 get_eurostat_cache - The 'b_htec_cis3-2026.08.16-0-0' was loaded from 'b_htec_cis3-2026.08.16-1-1' in '.restatapi_env'. get_eurostat_data - The data was loaded from cache. get_eurostat_data - cached restat - nrow:1006; ncol:7; colnames:indic_in/nace_r1/unit/geo/time/values/flags get_eurostat_data - restat - nrow:1006; ncol:7; colnames:indic_in/nace_r1/unit/geo/time/values/flags get_eurostat_data - processed restat - nrow:1006; ncol:6; colnames:indic_in/nace_r1/unit/geo/time/values get_eurostat_data - The data was cached in memory ('b_htec_cis3-2026.08.16-0-0' in '.restatapi_env'). get_eurostat_data - restat NULL?:FALSE id: htec_cis3 filters: date filter: test_restatapi.R.............. 5 tests OK test_restatapi.R.............. 5 tests OK test_restatapi.R.............. 8 tests OK test_restatapi.R.............. 8 tests OK get_eurostat_raw - API version:2 get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr?format=sdmx_2.1_structured&compressed=true get_eurostat_raw - file format: gz get_compressed_sdmx - url:https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr?format=sdmx_2.1_structured&compressed=true get_compressed_sdmx - format:gz get_compressed_sdmx - xml NULL:FALSE get_eurostat_raw - class(xml_leafs): xml_nodeset get_eurostat_raw - number of nodes: 583 get_eurostat_raw - number of cores: 2 get_eurostat_raw - caching in raw: TRUE get_eurostat_raw - local filter: FALSE get_eurostat_raw - called from: get_eurostat_rawtestid4xmlTRUETRUE get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE get_eurostat_raw - The raw data was cached in memory ('r_agr_r_milkpr-2026.08.16-1' in '.restatapi_env'). test_restatapi.R.............. 8 tests OK get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_data - Trying to get from cache: b_agr_r_milkpr-2026.08.16-1-0 get_eurostat_cache - The 'b_agr_r_milkpr-2026.08.16-1-0' was loaded from 'r_agr_r_milkpr-2026.08.16-1' in '.restatapi_env'. get_eurostat_data - The data was loaded from cache. get_eurostat_data - cached restat - nrow:11870; ncol:7; colnames:geo/milkitem/freq/dairyprod/TIME_PERIOD/OBS_VALUE/OBS_FLAG get_eurostat_data - restat - nrow:11870; ncol:7; colnames:geo/milkitem/freq/dairyprod/TIME_PERIOD/OBS_VALUE/OBS_FLAG get_eurostat_data - processed restat - nrow:11599; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - The data was cached in memory ('b_agr_r_milkpr-2026.08.16-1-0' in '.restatapi_env'). get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: date filter: test_restatapi.R.............. 8 tests OK get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_data - date_filter: 2008 create_filter_table - filters class: numeric; size: 1; filters:2008 create_filter_table - filters: 2008; is numeric: TRUE; call parents: 7 create_filter_table - length df: 1 content df: 2008 create_filter_table - 2008 date filter length: 1, nchar date_filter: 4 get_eurostat_data - date_filter: 2008 nrow dft: 1 -?startPeriod=2008-01-01&endPeriod=2008-12-31 https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2008-01-01&endPeriod=2008-12-31 trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2008-01-01&endPeriod=2008-12-31' downloaded 106 KB get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 410 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:410; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS get_eurostat_data - processed restat - nrow:390; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: date filter: ?startPeriod=2008-01-01&endPeriod=2008-12-31 test_restatapi.R.............. 8 tests OK test_restatapi.R.............. 9 tests OK test_restatapi.R.............. 10 tests OK get_eurostat_raw - API version:2 get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/irt_h_eurcoe_d?format=TSV&compressed=true get_eurostat_raw - class(raw): data.tabledata.frame get_eurostat_raw - caching in raw: TRUE get_eurostat_raw - local filter: FALSE get_eurostat_raw - called from: get_eurostat_rawtestid5TRUE get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE get_eurostat_raw - The raw data was cached in memory ('r_irt_h_eurcoe_d-2026.08.16-0' in '.restatapi_env'). test_restatapi.R.............. 10 tests OK get_eurostat_bulk - API version:2 get_eurostat_bulk - class of id, cache, update_cache, cache_dir, compress_file, stringsAsFactors, keep_flags, check_toc, melt, verbose: character - logical -logical - NULL - logical - logical - logical - logical - logical - logical get_eurostat_raw - API version:2 get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/irt_h_eurcoe_d?format=TSV&compressed=true get_eurostat_raw - class(raw): data.tabledata.frame get_eurostat_raw - caching in raw: FALSE get_eurostat_raw - local filter: FALSE get_eurostat_raw - called from: restatapi::get_eurostat_rawidtxtcacheupdate_cachecache_dircompress_filestringsAsFactorskeep_flagscheck_tocTRUEverbose get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE get_eurostat_bulk - The bulk data was cached in memory ('b_irt_h_eurcoe_d-2026.08.16-1-0' in '.restatapi_env'). test_restatapi.R.............. 10 tests OK get_eurostat_raw - API version:2 get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml get_eurostat_toc - Warning by the download of the xml version of the TOC file: URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached readBin(6, "raw", 65536) get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. The TOC is missing. Could not get the download link. test_restatapi.R.............. 10 tests OK get_eurostat_bulk - API version:2 get_eurostat_cache - The 'b_irt_h_eurcoe_d-2026.08.16-1-0' was loaded from 'b_irt_h_eurcoe_d-2026.08.16-1-0' in '.restatapi_env'. get_eurostat_bulk - The bulk data was cached previously in memory ('b_irt_h_eurcoe_d-2026.08.16-1-0' in '.restatapi_env'). It remained unchanged. test_restatapi.R.............. 10 tests OK test_restatapi.R.............. 11 tests OK test_restatapi.R.............. 11 tests OK trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/agr_r_milkpr?references=children' downloaded 2.9 MB trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/agr_r_milkpr' downloaded 15 KB test_restatapi.R.............. 12 tests OK test_restatapi.R.............. 13 tests OK test_restatapi.R.............. 14 tests OK test_restatapi.R.............. 15 tests OK test_restatapi.R.............. 18 tests OK trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children' downloaded 12.2 MB trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/avia_par_me/?startPeriod=2017-03-01&endPeriod=2017-03-31' downloaded 58 KB trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children' downloaded 11.9 MB test_restatapi.R.............. 19 tests OK test_restatapi.R.............. 20 tests 1 fails test_restatapi.R.............. 20 tests 1 fails test_restatapi.R.............. 20 tests 1 fails get_eurostat_cache - The 'agr_r_milkpr.en.dsd' was loaded from 'agr_r_milkpr.en.dsd' in '.restatapi_env'. test_restatapi.R.............. 20 tests 1 fails get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_cache - The 'agr_r_milkpr.en.dsd' was loaded from 'agr_r_milkpr.en.dsd' in '.restatapi_env'. create_filter_table - filters class: character; size: 1; filters:AT ...AT- https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT/ trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT/' Content type 'application/vnd.sdmx.genericdata+xml;version=2.1' length 3279 bytes ================================================== downloaded 3279 bytes get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 1 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:29; ncol:6; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue get_eurostat_data - processed restat - nrow:29; ncol:5; colnames:geo/milkitem/dairyprod/time/values get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: ...AT date filter: get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_cache - The 'agr_r_milkpr.en.dsd' was loaded from 'agr_r_milkpr.en.dsd' in '.restatapi_env'. create_filter_table - filters class: character; size: 1; filters:AT ...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34- https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34/ trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34/' downloaded 31 KB get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 13 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:377; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS get_eurostat_data - processed restat - nrow:377; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: ...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34 date filter: get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_data - date_filter: 2016 create_filter_table - filters class: numeric; size: 1; filters:2016 create_filter_table - filters: 2016; is numeric: TRUE; call parents: 8 create_filter_table - length df: 1 content df: 2016 create_filter_table - 2016 date filter length: 1, nchar date_filter: 4 get_eurostat_data - date_filter: 2016 nrow dft: 1 -?startPeriod=2016-01-01&endPeriod=2016-12-31 https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2016-01-01&endPeriod=2016-12-31 trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2016-01-01&endPeriod=2016-12-31' downloaded 137 KB get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 508 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:508; ncol:6; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue get_eurostat_data - processed restat - nrow:494; ncol:5; colnames:geo/milkitem/dairyprod/time/values get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: date filter: ?startPeriod=2016-01-01&endPeriod=2016-12-31 get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_data - date_filter: 2016 create_filter_table - filters class: character; size: 1; filters:2016 create_filter_table - filters: 2016; is numeric: FALSE; call parents: 8 create_filter_table - length df: 1 content df: 2016 create_filter_table - 2016 date filter length: 1, nchar date_filter: 4 get_eurostat_data - date_filter: 2016 nrow dft: 1 -?startPeriod=2016-01-01&endPeriod=2016-12-31 https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2016-01-01&endPeriod=2016-12-31 trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2016-01-01&endPeriod=2016-12-31' downloaded 137 KB get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 508 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:508; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS get_eurostat_data - processed restat - nrow:494; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: date filter: ?startPeriod=2016-01-01&endPeriod=2016-12-31 get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_cache - The 'agr_r_milkpr.en.dsd' was loaded from 'agr_r_milkpr.en.dsd' in '.restatapi_env'. create_filter_table - filters class: character; size: 1; filters:AT ...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34+EL11+EL3+EL30+EL51+ES51+ES52+HR+HR02+HR03+HR04+HR06+HR01+ITF5+LV+LV0+LV00+HU22+RO4+SK01+NO01+NO03+NO04+NO05+UKD3+UKK1+TR2+TR5+TR63+TR72+TR8+TR83+TRB1+TRC3- https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34+EL11+EL3+EL30+EL51+ES51+ES52+HR+HR02+HR03+HR04+HR06+HR01+ITF5+LV+LV0+LV00+HU22+RO4+SK01+NO01+NO03+NO04+NO05+UKD3+UKK1+TR2+TR5+TR63+TR72+TR8+TR83+TRB1+TRC3/ trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34+EL11+EL3+EL30+EL51+ES51+ES52+HR+HR02+HR03+HR04+HR06+HR01+ITF5+LV+LV0+LV00+HU22+RO4+SK01+NO01+NO03+NO04+NO05+UKD3+UKK1+TR2+TR5+TR63+TR72+TR8+TR83+TRB1+TRC3/' downloaded 83 KB get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 46 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:1004; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS get_eurostat_data - processed restat - nrow:993; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: ...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34+EL11+EL3+EL30+EL51+ES51+ES52+HR+HR02+HR03+HR04+HR06+HR01+ITF5+LV+LV0+LV00+HU22+RO4+SK01+NO01+NO03+NO04+NO05+UKD3+UKK1+TR2+TR5+TR63+TR72+TR8+TR83+TRB1+TRC3 date filter: test_restatapi.R.............. 24 tests 1 fails get_eurostat_dsd - API version:2 get_eurostat_dsd - Trying to download the DSD from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children' downloaded 16.9 MB get_eurostat_dsd - Warning by the download of the DSD file: URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children': Timeout of 60 seconds was reached utils::download.file(dsd_endpoint, temp, dmethod) get_eurostat_dsd - class(temp): character - is.na(temp): FALSE - file.size(temp): 17734736 - temp: /tmp/th798/30958541/RtmpDArLUa/file3de23d391c1428 Trying to extract the DSD from: /tmp/th798/30958541/RtmpDArLUa/file3de23d391c1428 get_eurostat_dsd - Error during the extraction of the XML from the downloaded DSD file: AttValue: ' expected [40] read_xml.character(temp) get_eurostat_dsd - The dsd_xml is NULL. Please check in a browser the url below. If it provides valid response you can try again to download the DSD. https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children test_restatapi.R.............. 24 tests 1 fails test_restatapi.R.............. 24 tests 1 fails test_restatapi.R.............. 24 tests 1 fails test_restatapi.R.............. 24 tests 1 fails test_restatapi.R.............. 26 tests 1 fails test_restatapi.R.............. 27 tests 1 fails test_restatapi.R.............. 27 tests 1 fails test_restatapi.R.............. 28 tests 1 fails test_restatapi.R.............. 30 tests 1 fails test_restatapi.R.............. 31 tests 1 fails test_restatapi.R.............. 35 tests 1 fails test_restatapi.R.............. 37 tests 1 fails test_restatapi.R.............. 39 tests 1 fails test_restatapi.R.............. 40 tests 1 fails test_restatapi.R.............. 41 tests 1 fails test_restatapi.R.............. 42 tests 1 fails test_restatapi.R.............. 43 tests 1 fails test_restatapi.R.............. 44 tests 1 fails test_restatapi.R.............. 45 tests 1 fails test_restatapi.R.............. 46 tests 1 fails test_restatapi.R.............. 47 tests 1 fails test_restatapi.R.............. 48 tests 1 fails test_restatapi.R.............. 49 tests 1 fails test_restatapi.R.............. 50 tests 1 fails test_restatapi.R.............. 51 tests 1 fails test_restatapi.R.............. 52 tests 1 fails test_restatapi.R.............. 53 tests 1 fails get_eurostat_raw - API version:2 get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/tus_00age?format=TSV&compressed=true get_eurostat_raw - class(raw): data.tabledata.frame get_eurostat_raw - caching in raw: TRUE get_eurostat_raw - local filter: FALSE get_eurostat_raw - called from: get_eurostat_rawtestid7 get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE get_eurostat_raw - The raw data was cached in memory ('r_tus_00age-2026.08.16-0' in '.restatapi_env'). test_restatapi.R.............. 53 tests 1 fails get_eurostat_dsd - API version:2 get_eurostat_dsd - Trying to download the DSD from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/tus_00age?references=children trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/tus_00age?references=children' downloaded 3.7 MB get_eurostat_dsd - class(temp): character - is.na(temp): FALSE - file.size(temp): 3901770 - temp: /tmp/th798/30958541/RtmpDArLUa/file3de23d732852ea Trying to extract the DSD from: /tmp/th798/30958541/RtmpDArLUa/file3de23d732852ea get_eurostat_dsd - concepts:freq,unit,sex,age,acl00,geo,OBS_FLAG,CONF_STATUS extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="FREQ"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="FREQ"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="UNIT"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="UNIT"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="SEX"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="SEX"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="AGE"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="AGE"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="ACL00"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="ACL00"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="GEO"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="GEO"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="OBS_FLAG"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="OBS_FLAG"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="CONF_STATUS"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="CONF_STATUS"]/s:Code/c:Name[@xml:lang="en"] get_eurostat_dsd - DSD NULL:FALSE get_eurostat_dsd - Trying to download the CC from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/tus_00age trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/tus_00age' Content type 'application/vnd.sdmx.structure+xml;version=2.1' length 3844 bytes ================================================== downloaded 3844 bytes get_eurostat_dsd - Trying to extract the CC from: /tmp/th798/30958541/RtmpDArLUa/file3de23d15ba8a10 character number of nodes: 7 number of cores: 2 get_eurostat_dsd - The DSD of the tus_00age dataset was cached in memory ('tus_00age.en.dsd' in '.restatapi_env'). test_restatapi.R.............. 53 tests 1 fails create_filter_table - filters class: character; size: 3; filters:TIME_SPHungaryT test_restatapi.R.............. 54 tests 1 fails get_eurostat_raw - API version:2 get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/avia_par_me?format=TSV&compressed=true get_eurostat_raw - class(raw): data.tabledata.frame get_eurostat_raw - caching in raw: TRUE get_eurostat_raw - local filter: FALSE get_eurostat_raw - called from: get_eurostat_rawtestid6 get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE get_eurostat_raw - The raw data was cached in memory ('r_avia_par_me-2026.08.16-0' in '.restatapi_env'). test_restatapi.R.............. 54 tests 1 fails create_filter_table - filters class: character; size: 1; filters:2017:2018 create_filter_table - filters: 2017:2018; is numeric: FALSE; call parents: 6 create_filter_table - length df: 1 content df: 2017:2018 create_filter_table - 2017:2018 date filter length: 1, nchar date_filter: 9 test_restatapi.R.............. 55 tests 1 fails get_eurostat_codelist - API version:2 get_eurostat_codelist - API version:2 get_eurostat_codelist - Trying to download the codelist from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/codelist/ESTAT/SEX trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/codelist/ESTAT/SEX' Content type 'application/vnd.sdmx.structure+xml;version=2.1' length 5941 bytes ================================================== downloaded 5941 bytes Trying to extract the codelist from: /tmp/th798/30958541/RtmpDArLUa/file3de23d687745a9 get_eurostat_codelist - codelist NULL:TRUE test_restatapi.R.............. 55 tests 1 fails test_restatapi.R.............. 57 tests 1 fails 4.18.0-553.124.1.el8_10.x86_64 test_restatapi.R.............. 57 tests 1 fails Are we at home:FALSE test_restatapi.R.............. 57 tests 1 fails test_restatapi.R.............. 57 tests 1 fails get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=fr trying URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=fr' downloaded 2.1 MB get_eurostat_toc - The TOC was cached in memory ('toc.txt.fr' in '.restatapi_env'). test_restatapi.R.............. 57 tests 1 fails get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=de trying URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=de' downloaded 2.0 MB get_eurostat_toc - The TOC was cached in memory ('toc.txt.de' in '.restatapi_env'). test_restatapi.R.............. 57 tests 1 fails test_restatapi.R.............. 58 tests 1 fails get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_dsd - API version:2 get_eurostat_dsd - Trying to download the DSD from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/agr_r_milkpr?references=children trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/agr_r_milkpr?references=children' downloaded 2.9 MB get_eurostat_dsd - class(temp): character - is.na(temp): FALSE - file.size(temp): 3008178 - temp: /tmp/th798/30958541/RtmpDArLUa/file3de23d1122e3ee Trying to extract the DSD from: /tmp/th798/30958541/RtmpDArLUa/file3de23d1122e3ee get_eurostat_dsd - concepts:freq,milkitem,dairyprod,geo,OBS_FLAG,CONF_STATUS extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="FREQ"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="FREQ"]/s:Code/c:Name[@xml:lang="de"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="MILKITEM"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="MILKITEM"]/s:Code/c:Name[@xml:lang="de"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="DAIRYPROD"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="DAIRYPROD"]/s:Code/c:Name[@xml:lang="de"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="GEO"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="GEO"]/s:Code/c:Name[@xml:lang="de"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="OBS_FLAG"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="OBS_FLAG"]/s:Code/c:Name[@xml:lang="de"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="CONF_STATUS"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="CONF_STATUS"]/s:Code/c:Name[@xml:lang="de"] get_eurostat_dsd - DSD NULL:FALSE get_eurostat_dsd - Trying to download the CC from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/agr_r_milkpr trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/agr_r_milkpr' downloaded 15 KB get_eurostat_dsd - Trying to extract the CC from: /tmp/th798/30958541/RtmpDArLUa/file3de23d5ae8bdf1 character number of nodes: 5 number of cores: 2 get_eurostat_dsd - The DSD of the agr_r_milkpr dataset was cached in memory ('agr_r_milkpr.de.dsd' in '.restatapi_env'). create_filter_table - filters class: character; size: 2; filters:BE$Ungarn get_eurostat_data - date_filter: 2007-06< create_filter_table - filters class: character; size: 1; filters:2007-06< create_filter_table - filters: 2007-06<; is numeric: FALSE; call parents: 7 create_filter_table - length df: 1 content df: 2007-06< create_filter_table - 2007-06< date filter length: 1, nchar date_filter: 8 get_eurostat_data - date_filter: 2007-06< nrow dft: 1 ...BE+HU-?startPeriod=2007-06-01 https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...BE+HU/?startPeriod=2007-06-01 trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...BE+HU/?startPeriod=2007-06-01' Content type 'application/vnd.sdmx.genericdata+xml;version=2.1' length 3959 bytes ================================================== downloaded 3959 bytes get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 2 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:34; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS get_eurostat_data - processed restat - nrow:34; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: ...BE+HU date filter: ?startPeriod=2007-06-01 test_restatapi.R.............. 58 tests 1 fails get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_cache - The 'agr_r_milkpr.en.dsd' was loaded from 'agr_r_milkpr.en.dsd' in '.restatapi_env'. create_filter_table - filters class: character; size: 2; filters:BE$Hungary get_eurostat_data - date_filter: 2007-06< create_filter_table - filters class: character; size: 1; filters:2007-06< create_filter_table - filters: 2007-06<; is numeric: FALSE; call parents: 7 create_filter_table - length df: 1 content df: 2007-06< create_filter_table - 2007-06< date filter length: 1, nchar date_filter: 8 get_eurostat_data - date_filter: 2007-06< nrow dft: 1 ...BE+HU-?startPeriod=2007-06-01 https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...BE+HU/?startPeriod=2007-06-01 trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...BE+HU/?startPeriod=2007-06-01' Content type 'application/vnd.sdmx.genericdata+xml;version=2.1' length 3959 bytes ================================================== downloaded 3959 bytes get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 2 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:34; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS get_eurostat_data - processed restat - nrow:34; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: ...BE+HU date filter: ?startPeriod=2007-06-01 test_restatapi.R.............. 58 tests 1 fails test_restatapi.R.............. 59 tests 1 fails clean_restatapi_cache - All objects (outside of 'cfg', 'rav', 'cc' and 'dmethod') are removed from '.restatapi_env'. clean_restatapi_cache - Deleted all .rds files from /tmp/th798/30958541/RtmpDArLUa test_restatapi.R.............. 59 tests 1 fails There are skipped tests:2-7,8,9,14-17,18,22-29,33-34,44,49-50,54 test_restatapi.R.............. 59 tests 1 fails Skipped tests: 2-7,8,9,14-17,18,22-29,33-34,44,49-50,54 config version: 2 test_restatapi.R.............. 59 tests 1 fails test_restatapi.R.............. 59 tests 1 fails 10.6s ----- FAILED[data]: test_restatapi.R<169--169> call| expect_true(is.null(dt8)) diff| Expected TRUE, got FALSE Error: 1 out of 59 tests failed Execution halted * checking PDF version of manual ... OK * DONE Status: 1 ERROR See '/tmp/th798/30958541/R-devel/1314/restatapi.Rcheck/00check.log' for details. [1] "2026-08-16 03:56:43 MST" [1] "2026-08-16 03:56:43 MST" Installing package into '/tmp/th798/30958541/R-devel/1314/library' (as 'lib' is unspecified) * installing *source* package 'data.table' ... ** this is package 'data.table' version '1.18.99' ** using staged installation zlib 1.2.13 is available ok * checking if OpenMP works with CFLAGS='' LIBS=''... no * checking if OpenMP works with CFLAGS='$(SHLIB_OPENMP_CFLAGS)' LIBS='$(SHLIB_OPENMP_CFLAGS)'... yes ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c assign.c -o assign.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c between.c -o between.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c bmerge.c -o bmerge.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c chmatch.c -o chmatch.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c cj.c -o cj.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c coalesce.c -o coalesce.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c deleterows.c -o deleterows.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c dogroups.c -o dogroups.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fastmean.c -o fastmean.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fcast.c -o fcast.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fifelse.c -o fifelse.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fmelt.c -o fmelt.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c forder.c -o forder.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c frank.c -o frank.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fread.c -o fread.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c freadR.c -o freadR.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c froll.c -o froll.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c frollR.c -o frollR.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c frolladaptive.c -o frolladaptive.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c frollapply.c -o frollapply.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fsort.c -o fsort.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fwrite.c -o fwrite.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fwriteR.c -o fwriteR.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c gsumm.c -o gsumm.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c hash.c -o hash.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c idatetime.c -o idatetime.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c ijoin.c -o ijoin.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c inrange.c -o inrange.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c mergelist.c -o mergelist.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c nafill.c -o nafill.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c negate.c -o negate.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c nqrecreateindices.c -o nqrecreateindices.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c openmp-utils.c -o openmp-utils.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c programming.c -o programming.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c quickselect.c -o quickselect.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c rbindlist.c -o rbindlist.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c reorder.c -o reorder.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c shellsort.c -o shellsort.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c shift.c -o shift.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c snprintf.c -o snprintf.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c subset.c -o subset.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c transpose.c -o transpose.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c types.c -o types.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c uniqlist.c -o uniqlist.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c utils.c -o utils.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c vecseq.c -o vecseq.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c wrappers.c -o wrappers.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o data.table.so assign.o between.o bmerge.o chmatch.o cj.o coalesce.o deleterows.o dogroups.o fastmean.o fcast.o fifelse.o fmelt.o forder.o frank.o fread.o freadR.o froll.o frollR.o frolladaptive.o frollapply.o fsort.o fwrite.o fwriteR.o gsumm.o hash.o idatetime.o ijoin.o init.o inrange.o mergelist.o nafill.o negate.o nqrecreateindices.o openmp-utils.o programming.o quickselect.o rbindlist.o reorder.o shellsort.o shift.o snprintf.o subset.o transpose.o types.o uniqlist.o utils.o vecseq.o wrappers.o -fvisibility=hidden -fopenmp -L/home/th798/.conda/envs/emacs1/lib -lz PKG_CFLAGS = -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include PKG_LIBS = -fvisibility=hidden -fopenmp -L/home/th798/.conda/envs/emacs1/lib -lz installing to /tmp/th798/30958541/R-devel/1314/library/00LOCK-data.table/00new/data.table/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (data.table) [1] "2026-08-16 03:57:11 MST" * using log directory '/tmp/th798/30958541/R-devel/1314/restatapi.Rcheck' * using R Under development (unstable) (2026-08-15 r90413) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Spack GCC) 12.2.0 GNU Fortran (Spack GCC) 12.2.0 * running under: Red Hat Enterprise Linux 8.10 (Ootpa) * using session charset: ASCII * current time: 2026-08-16 10:57:11 UTC * checking for file 'restatapi/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'restatapi' version '0.25.0' * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package 'restatapi' can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking code files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking loading without being on the library search path ... OK * checking whether startup messages can be suppressed ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking examples ... OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... Running 'tinytest.R' OK * checking PDF version of manual ... OK * DONE Status: OK [1] "2026-08-16 04:01:13 MST" > system(paste(c("diff -u", Rcheck.list), collapse=" ")) --- R_Under_development_unstable_2026-08-15_r90413/release_1.18.4.Rcheck/00check.log 2026-08-16 03:56:43.138096107 -0700 +++ R_Under_development_unstable_2026-08-15_r90413/master_1.18.99.813ed951c5bac35d0d31626cc7ab7e3192aec9f6.Rcheck/00check.log 2026-08-16 04:01:13.926737159 -0700 @@ -6,7 +6,7 @@ GNU Fortran (Spack GCC) 12.2.0 * running under: Red Hat Enterprise Linux 8.10 (Ootpa) * using session charset: ASCII -* current time: 2026-08-16 10:45:19 UTC +* current time: 2026-08-16 10:57:11 UTC * checking for file 'restatapi/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'restatapi' version '0.25.0' @@ -51,750 +51,8 @@ * checking for unstated dependencies in examples ... OK * checking examples ... OK * checking for unstated dependencies in 'tests' ... OK -* checking tests ... ERROR +* checking tests ... OK Running 'tinytest.R' -Running the tests in 'tests/tinytest.R' failed. -Complete output: - > if ( requireNamespace("tinytest", quietly=TRUE) ){ - + home <- length(unclass(packageVersion("restatapi"))[[1]]) == 4 - + tinytest::test_package("restatapi", at_home = home) - + } - restatapi: - version 0.25.0 - - config file with the API version 2 loaded from GitHub (the 'current' API version number is 2). - - 4 from the 64 cores are used for parallel computing, can be changed with 'options(restatapi_cores=...)' - - 'auto' method will be used for file download, can be changed with 'options(restatapi_dmethod=...)' - - the Table of contents (TOC) was not pre-loaded into the deafult cache ('.restatapi_env'). - - test_restatapi.R.............. 0 tests - test_restatapi.R.............. 0 tests - test_restatapi.R.............. 0 tests - test_restatapi.R.............. 0 tests - test_restatapi.R.............. 0 tests - test_restatapi.R.............. 0 tests - test_restatapi.R.............. 0 tests - test_restatapi.R.............. 0 tests - test_restatapi.R.............. 0 tests - test_restatapi.R.............. 0 tests - clean_restatapi_cache - All objects (outside of 'cfg', 'rav', 'cc' and 'dmethod') are removed from '.restatapi_env'. - - test_restatapi.R.............. 0 tests - test_restatapi.R.............. 0 tests - test_restatapi.R.............. 0 tests - test_restatapi.R.............. 0 tests - test_restatapi.R.............. 0 tests - test_restatapi.R.............. 0 tests - test_restatapi.R.............. 0 tests - test_restatapi.R.............. 0 tests - test_restatapi.R.............. 0 tests - test_restatapi.R.............. 0 tests - test_restatapi.R.............. 0 tests - test_restatapi.R.............. 0 tests - test_restatapi.R.............. 0 tests - test_restatapi.R.............. 0 tests - test_restatapi.R.............. 0 tests - get_eurostat_toc - API version:2 - number of cores:2 - get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml - get_eurostat_toc - Warning by the download of the xml version of the TOC file: - URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached - readBin(3, "raw", 65536) - get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. - - test_restatapi.R.............. 0 tests - get_eurostat_toc - API version:2 - number of cores:2 - get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=en - trying URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=en' - downloaded 1.9 MB - - get_eurostat_toc - The TOC was cached in memory ('toc.txt.en' in '.restatapi_env'). - - test_restatapi.R.............. 0 tests - get_eurostat_toc - API version:2 - number of cores:2 - get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml - get_eurostat_toc - Warning by the download of the xml version of the TOC file: - URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached - readBin(3, "raw", 65536) - get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. - - test_restatapi.R.............. 0 tests - test_restatapi.R.............. 1 tests OK - test_restatapi.R.............. 1 tests OK - get_eurostat_toc - API version:2 - number of cores:2 - get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml - get_eurostat_toc - Warning by the download of the xml version of the TOC file: - URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached - readBin(3, "raw", 65536) - get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. - - test_restatapi.R.............. 1 tests OK - get_eurostat_toc - API version:2 - number of cores:2 - get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml - get_eurostat_toc - Warning by the download of the xml version of the TOC file: - URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached - readBin(3, "raw", 65536) - get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. - - test_restatapi.R.............. 1 tests OK - get_eurostat_toc - API version:2 - number of cores:2 - get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml - get_eurostat_toc - Warning by the download of the xml version of the TOC file: - URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached - readBin(3, "raw", 65536) - get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. - - test_restatapi.R.............. 1 tests OK - test_restatapi.R.............. 1 tests OK - test_restatapi.R.............. 1 tests OK trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/text?references=children' - - test_restatapi.R.............. 2 tests OK - get_eurostat_dsd - API version:2 - - get_eurostat_dsd - Trying to download the DSD from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/NAMA_10_GDP?references=children - trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/NAMA_10_GDP?references=children' - downloaded 3.4 MB - - - get_eurostat_dsd - class(temp): character - is.na(temp): FALSE - file.size(temp): 3591544 - temp: /tmp/th798/30958541/RtmpDArLUa/file3de23d2489184a - Trying to extract the DSD from: /tmp/th798/30958541/RtmpDArLUa/file3de23d2489184a - get_eurostat_dsd - concepts:freq,unit,na_item,geo,OBS_FLAG,CONF_STATUS - - extract_dsd - API version:2 - extract_dsd - xml_string_clc://s:Codelist[@id="FREQ"]/s:Code - extract_dsd - xml_string_cln://s:Codelist[@id="FREQ"]/s:Code/c:Name[@xml:lang="en"] - - extract_dsd - API version:2 - extract_dsd - xml_string_clc://s:Codelist[@id="UNIT"]/s:Code - extract_dsd - xml_string_cln://s:Codelist[@id="UNIT"]/s:Code/c:Name[@xml:lang="en"] - - extract_dsd - API version:2 - extract_dsd - xml_string_clc://s:Codelist[@id="NA_ITEM"]/s:Code - extract_dsd - xml_string_cln://s:Codelist[@id="NA_ITEM"]/s:Code/c:Name[@xml:lang="en"] - - extract_dsd - API version:2 - extract_dsd - xml_string_clc://s:Codelist[@id="GEO"]/s:Code - extract_dsd - xml_string_cln://s:Codelist[@id="GEO"]/s:Code/c:Name[@xml:lang="en"] - - extract_dsd - API version:2 - extract_dsd - xml_string_clc://s:Codelist[@id="OBS_FLAG"]/s:Code - extract_dsd - xml_string_cln://s:Codelist[@id="OBS_FLAG"]/s:Code/c:Name[@xml:lang="en"] - - extract_dsd - API version:2 - extract_dsd - xml_string_clc://s:Codelist[@id="CONF_STATUS"]/s:Code - extract_dsd - xml_string_cln://s:Codelist[@id="CONF_STATUS"]/s:Code/c:Name[@xml:lang="en"] - get_eurostat_dsd - DSD NULL:FALSE - get_eurostat_dsd - Trying to download the CC from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/NAMA_10_GDP - trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/NAMA_10_GDP' - Content type 'application/vnd.sdmx.structure+xml;version=2.1' length 5597 bytes - ================================================== - downloaded 5597 bytes - - get_eurostat_dsd - Trying to extract the CC from: /tmp/th798/30958541/RtmpDArLUa/file3de23d4ec52724 - character - number of nodes: 5 - number of cores: 2 - - get_eurostat_dsd - The DSD of the NAMA_10_GDP dataset was cached in memory ('NAMA_10_GDP.en.dsd' in '.restatapi_env'). - - test_restatapi.R.............. 2 tests OK - test_restatapi.R.............. 5 tests OK - test_restatapi.R.............. 5 tests OK - test_restatapi.R.............. 5 tests OK - test_restatapi.R.............. 5 tests OK get_eurostat_data - footer code option value at start: - get_eurostat_data - footer code option value after reset: - get_eurostat_data - id: htec_cis3 - get_eurostat_data - select_freq: - get_eurostat_data - Trying to get from cache: b_htec_cis3-2026.08.16-1-1 - - get_eurostat_bulk - API version:2 - get_eurostat_bulk - class of id, cache, update_cache, cache_dir, compress_file, stringsAsFactors, keep_flags, check_toc, melt, verbose: - character - logical -logical - NULL - logical - logical - logical - logical - logical - logical - - get_eurostat_raw - API version:2 - get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/htec_cis3?format=TSV&compressed=true - get_eurostat_raw - class(raw): data.tabledata.frame - get_eurostat_raw - caching in raw: FALSE - get_eurostat_raw - local filter: FALSE - get_eurostat_raw - called from: restatapi::get_eurostat_rawidtxtcacheupdate_cachecache_dircompress_filestringsAsFactorskeep_flagscheck_tocTRUEverbose - get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE - get_eurostat_data - The data was downloaded with bulk download. - get_eurostat_data - bulk restat - nrow:1006; ncol:7; colnames:indic_in/nace_r1/unit/geo/time/values/flags - get_eurostat_data - cflags:TRUE - get_eurostat_data - restat - nrow:1006; ncol:7; colnames:indic_in/nace_r1/unit/geo/time/values/flags - get_eurostat_data - processed restat - nrow:1006; ncol:7; colnames:indic_in/nace_r1/unit/geo/time/values/flags - get_eurostat_data - The data was cached in memory ('b_htec_cis3-2026.08.16-1-1' in '.restatapi_env'). - get_eurostat_data - restat NULL?:FALSE - id: htec_cis3 - filters: - date filter: - - test_restatapi.R.............. 5 tests OK - test_restatapi.R.............. 5 tests OK get_eurostat_data - footer code option value at start: - get_eurostat_data - footer code option value after reset: - get_eurostat_data - id: htec_cis3 - get_eurostat_data - select_freq: - get_eurostat_data - Trying to get from cache: b_htec_cis3-2026.08.16-0-0 - - get_eurostat_cache - The 'b_htec_cis3-2026.08.16-0-0' was loaded from 'b_htec_cis3-2026.08.16-1-1' in '.restatapi_env'. - get_eurostat_data - The data was loaded from cache. - get_eurostat_data - cached restat - nrow:1006; ncol:7; colnames:indic_in/nace_r1/unit/geo/time/values/flags - get_eurostat_data - restat - nrow:1006; ncol:7; colnames:indic_in/nace_r1/unit/geo/time/values/flags - get_eurostat_data - processed restat - nrow:1006; ncol:6; colnames:indic_in/nace_r1/unit/geo/time/values - get_eurostat_data - The data was cached in memory ('b_htec_cis3-2026.08.16-0-0' in '.restatapi_env'). - get_eurostat_data - restat NULL?:FALSE - id: htec_cis3 - filters: - date filter: - - test_restatapi.R.............. 5 tests OK - test_restatapi.R.............. 5 tests OK - test_restatapi.R.............. 8 tests OK - test_restatapi.R.............. 8 tests OK - get_eurostat_raw - API version:2 - get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr?format=sdmx_2.1_structured&compressed=true - get_eurostat_raw - file format: gz - - get_compressed_sdmx - url:https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr?format=sdmx_2.1_structured&compressed=true - get_compressed_sdmx - format:gz - get_compressed_sdmx - xml NULL:FALSE - get_eurostat_raw - class(xml_leafs): xml_nodeset - get_eurostat_raw - number of nodes: 583 - get_eurostat_raw - number of cores: 2 - get_eurostat_raw - caching in raw: TRUE - get_eurostat_raw - local filter: FALSE - get_eurostat_raw - called from: get_eurostat_rawtestid4xmlTRUETRUE - get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE - get_eurostat_raw - The raw data was cached in memory ('r_agr_r_milkpr-2026.08.16-1' in '.restatapi_env'). - - test_restatapi.R.............. 8 tests OK get_eurostat_data - footer code option value at start: - get_eurostat_data - footer code option value after reset: - get_eurostat_data - id: agr_r_milkpr - get_eurostat_data - select_freq: - get_eurostat_data - Trying to get from cache: b_agr_r_milkpr-2026.08.16-1-0 - - get_eurostat_cache - The 'b_agr_r_milkpr-2026.08.16-1-0' was loaded from 'r_agr_r_milkpr-2026.08.16-1' in '.restatapi_env'. - get_eurostat_data - The data was loaded from cache. - get_eurostat_data - cached restat - nrow:11870; ncol:7; colnames:geo/milkitem/freq/dairyprod/TIME_PERIOD/OBS_VALUE/OBS_FLAG - get_eurostat_data - restat - nrow:11870; ncol:7; colnames:geo/milkitem/freq/dairyprod/TIME_PERIOD/OBS_VALUE/OBS_FLAG - get_eurostat_data - processed restat - nrow:11599; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags - get_eurostat_data - The data was cached in memory ('b_agr_r_milkpr-2026.08.16-1-0' in '.restatapi_env'). - get_eurostat_data - restat NULL?:FALSE - id: agr_r_milkpr - filters: - date filter: - - test_restatapi.R.............. 8 tests OK get_eurostat_data - footer code option value at start: - get_eurostat_data - footer code option value after reset: - get_eurostat_data - id: agr_r_milkpr - get_eurostat_data - select_freq: - get_eurostat_data - date_filter: 2008 - create_filter_table - filters class: numeric; size: 1; filters:2008 - create_filter_table - filters: 2008; is numeric: TRUE; call parents: 7 - create_filter_table - length df: 1 content df: 2008 - create_filter_table - 2008 date filter length: 1, nchar date_filter: 4 - get_eurostat_data - date_filter: 2008 nrow dft: 1 - -?startPeriod=2008-01-01&endPeriod=2008-12-31 - https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2008-01-01&endPeriod=2008-12-31 - trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2008-01-01&endPeriod=2008-12-31' - downloaded 106 KB - - get_eurostat_data - class(xml_leafs):xml_nodeset - get_eurostat_data - number of nodes: 410 - get_eurostat_data - number of cores: 2 - get_eurostat_data - footer code option value after retrieval: - get_eurostat_data - restat - nrow:410; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS - get_eurostat_data - processed restat - nrow:390; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags - get_eurostat_data - restat NULL?:FALSE - id: agr_r_milkpr - filters: - date filter: ?startPeriod=2008-01-01&endPeriod=2008-12-31 - - test_restatapi.R.............. 8 tests OK - test_restatapi.R.............. 9 tests OK - test_restatapi.R.............. 10 tests OK - get_eurostat_raw - API version:2 - get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/irt_h_eurcoe_d?format=TSV&compressed=true - get_eurostat_raw - class(raw): data.tabledata.frame - get_eurostat_raw - caching in raw: TRUE - get_eurostat_raw - local filter: FALSE - get_eurostat_raw - called from: get_eurostat_rawtestid5TRUE - get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE - get_eurostat_raw - The raw data was cached in memory ('r_irt_h_eurcoe_d-2026.08.16-0' in '.restatapi_env'). - - test_restatapi.R.............. 10 tests OK - get_eurostat_bulk - API version:2 - get_eurostat_bulk - class of id, cache, update_cache, cache_dir, compress_file, stringsAsFactors, keep_flags, check_toc, melt, verbose: - character - logical -logical - NULL - logical - logical - logical - logical - logical - logical - - get_eurostat_raw - API version:2 - get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/irt_h_eurcoe_d?format=TSV&compressed=true - get_eurostat_raw - class(raw): data.tabledata.frame - get_eurostat_raw - caching in raw: FALSE - get_eurostat_raw - local filter: FALSE - get_eurostat_raw - called from: restatapi::get_eurostat_rawidtxtcacheupdate_cachecache_dircompress_filestringsAsFactorskeep_flagscheck_tocTRUEverbose - get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE - get_eurostat_bulk - The bulk data was cached in memory ('b_irt_h_eurcoe_d-2026.08.16-1-0' in '.restatapi_env'). - - test_restatapi.R.............. 10 tests OK - get_eurostat_raw - API version:2 - - get_eurostat_toc - API version:2 - number of cores:2 - get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml - get_eurostat_toc - Warning by the download of the xml version of the TOC file: - URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached - readBin(6, "raw", 65536) - get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. - The TOC is missing. Could not get the download link. - - test_restatapi.R.............. 10 tests OK - get_eurostat_bulk - API version:2 - - get_eurostat_cache - The 'b_irt_h_eurcoe_d-2026.08.16-1-0' was loaded from 'b_irt_h_eurcoe_d-2026.08.16-1-0' in '.restatapi_env'. - get_eurostat_bulk - The bulk data was cached previously in memory ('b_irt_h_eurcoe_d-2026.08.16-1-0' in '.restatapi_env'). It remained unchanged. - - test_restatapi.R.............. 10 tests OK - test_restatapi.R.............. 11 tests OK - test_restatapi.R.............. 11 tests OK trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/agr_r_milkpr?references=children' - downloaded 2.9 MB - - trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/agr_r_milkpr' - downloaded 15 KB - - - test_restatapi.R.............. 12 tests OK - test_restatapi.R.............. 13 tests OK - test_restatapi.R.............. 14 tests OK - test_restatapi.R.............. 15 tests OK - test_restatapi.R.............. 18 tests OK trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children' - downloaded 12.2 MB - - trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/avia_par_me/?startPeriod=2017-03-01&endPeriod=2017-03-31' - downloaded 58 KB - - trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children' - downloaded 11.9 MB - - - test_restatapi.R.............. 19 tests OK - test_restatapi.R.............. 20 tests 1 fails - test_restatapi.R.............. 20 tests 1 fails - test_restatapi.R.............. 20 tests 1 fails - get_eurostat_cache - The 'agr_r_milkpr.en.dsd' was loaded from 'agr_r_milkpr.en.dsd' in '.restatapi_env'. - - test_restatapi.R.............. 20 tests 1 fails get_eurostat_data - footer code option value at start: - get_eurostat_data - footer code option value after reset: - get_eurostat_data - id: agr_r_milkpr - get_eurostat_data - select_freq: - - get_eurostat_cache - The 'agr_r_milkpr.en.dsd' was loaded from 'agr_r_milkpr.en.dsd' in '.restatapi_env'. - create_filter_table - filters class: character; size: 1; filters:AT - ...AT- - https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT/ - trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT/' - Content type 'application/vnd.sdmx.genericdata+xml;version=2.1' length 3279 bytes - ================================================== - downloaded 3279 bytes - - get_eurostat_data - class(xml_leafs):xml_nodeset - get_eurostat_data - number of nodes: 1 - get_eurostat_data - number of cores: 2 - get_eurostat_data - footer code option value after retrieval: - get_eurostat_data - restat - nrow:29; ncol:6; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue - get_eurostat_data - processed restat - nrow:29; ncol:5; colnames:geo/milkitem/dairyprod/time/values - get_eurostat_data - restat NULL?:FALSE - id: agr_r_milkpr - filters: ...AT - date filter: - get_eurostat_data - footer code option value at start: - get_eurostat_data - footer code option value after reset: - get_eurostat_data - id: agr_r_milkpr - get_eurostat_data - select_freq: - - get_eurostat_cache - The 'agr_r_milkpr.en.dsd' was loaded from 'agr_r_milkpr.en.dsd' in '.restatapi_env'. - create_filter_table - filters class: character; size: 1; filters:AT - ...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34- - https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34/ - trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34/' - downloaded 31 KB - - get_eurostat_data - class(xml_leafs):xml_nodeset - get_eurostat_data - number of nodes: 13 - get_eurostat_data - number of cores: 2 - get_eurostat_data - footer code option value after retrieval: - get_eurostat_data - restat - nrow:377; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS - get_eurostat_data - processed restat - nrow:377; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags - get_eurostat_data - restat NULL?:FALSE - id: agr_r_milkpr - filters: ...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34 - date filter: - get_eurostat_data - footer code option value at start: - get_eurostat_data - footer code option value after reset: - get_eurostat_data - id: agr_r_milkpr - get_eurostat_data - select_freq: - get_eurostat_data - date_filter: 2016 - create_filter_table - filters class: numeric; size: 1; filters:2016 - create_filter_table - filters: 2016; is numeric: TRUE; call parents: 8 - create_filter_table - length df: 1 content df: 2016 - create_filter_table - 2016 date filter length: 1, nchar date_filter: 4 - get_eurostat_data - date_filter: 2016 nrow dft: 1 - -?startPeriod=2016-01-01&endPeriod=2016-12-31 - https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2016-01-01&endPeriod=2016-12-31 - trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2016-01-01&endPeriod=2016-12-31' - downloaded 137 KB - - get_eurostat_data - class(xml_leafs):xml_nodeset - get_eurostat_data - number of nodes: 508 - get_eurostat_data - number of cores: 2 - get_eurostat_data - footer code option value after retrieval: - get_eurostat_data - restat - nrow:508; ncol:6; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue - get_eurostat_data - processed restat - nrow:494; ncol:5; colnames:geo/milkitem/dairyprod/time/values - get_eurostat_data - restat NULL?:FALSE - id: agr_r_milkpr - filters: - date filter: ?startPeriod=2016-01-01&endPeriod=2016-12-31 - get_eurostat_data - footer code option value at start: - get_eurostat_data - footer code option value after reset: - get_eurostat_data - id: agr_r_milkpr - get_eurostat_data - select_freq: - get_eurostat_data - date_filter: 2016 - create_filter_table - filters class: character; size: 1; filters:2016 - create_filter_table - filters: 2016; is numeric: FALSE; call parents: 8 - create_filter_table - length df: 1 content df: 2016 - create_filter_table - 2016 date filter length: 1, nchar date_filter: 4 - get_eurostat_data - date_filter: 2016 nrow dft: 1 - -?startPeriod=2016-01-01&endPeriod=2016-12-31 - https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2016-01-01&endPeriod=2016-12-31 - trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2016-01-01&endPeriod=2016-12-31' - downloaded 137 KB - - get_eurostat_data - class(xml_leafs):xml_nodeset - get_eurostat_data - number of nodes: 508 - get_eurostat_data - number of cores: 2 - get_eurostat_data - footer code option value after retrieval: - get_eurostat_data - restat - nrow:508; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS - get_eurostat_data - processed restat - nrow:494; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags - get_eurostat_data - restat NULL?:FALSE - id: agr_r_milkpr - filters: - date filter: ?startPeriod=2016-01-01&endPeriod=2016-12-31 - get_eurostat_data - footer code option value at start: - get_eurostat_data - footer code option value after reset: - get_eurostat_data - id: agr_r_milkpr - get_eurostat_data - select_freq: - - get_eurostat_cache - The 'agr_r_milkpr.en.dsd' was loaded from 'agr_r_milkpr.en.dsd' in '.restatapi_env'. - create_filter_table - filters class: character; size: 1; filters:AT - ...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34+EL11+EL3+EL30+EL51+ES51+ES52+HR+HR02+HR03+HR04+HR06+HR01+ITF5+LV+LV0+LV00+HU22+RO4+SK01+NO01+NO03+NO04+NO05+UKD3+UKK1+TR2+TR5+TR63+TR72+TR8+TR83+TRB1+TRC3- - https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34+EL11+EL3+EL30+EL51+ES51+ES52+HR+HR02+HR03+HR04+HR06+HR01+ITF5+LV+LV0+LV00+HU22+RO4+SK01+NO01+NO03+NO04+NO05+UKD3+UKK1+TR2+TR5+TR63+TR72+TR8+TR83+TRB1+TRC3/ - trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34+EL11+EL3+EL30+EL51+ES51+ES52+HR+HR02+HR03+HR04+HR06+HR01+ITF5+LV+LV0+LV00+HU22+RO4+SK01+NO01+NO03+NO04+NO05+UKD3+UKK1+TR2+TR5+TR63+TR72+TR8+TR83+TRB1+TRC3/' - downloaded 83 KB - - get_eurostat_data - class(xml_leafs):xml_nodeset - get_eurostat_data - number of nodes: 46 - get_eurostat_data - number of cores: 2 - get_eurostat_data - footer code option value after retrieval: - get_eurostat_data - restat - nrow:1004; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS - get_eurostat_data - processed restat - nrow:993; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags - get_eurostat_data - restat NULL?:FALSE - id: agr_r_milkpr - filters: ...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34+EL11+EL3+EL30+EL51+ES51+ES52+HR+HR02+HR03+HR04+HR06+HR01+ITF5+LV+LV0+LV00+HU22+RO4+SK01+NO01+NO03+NO04+NO05+UKD3+UKK1+TR2+TR5+TR63+TR72+TR8+TR83+TRB1+TRC3 - date filter: - - test_restatapi.R.............. 24 tests 1 fails - get_eurostat_dsd - API version:2 - - get_eurostat_dsd - Trying to download the DSD from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children - trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children' - downloaded 16.9 MB - - get_eurostat_dsd - Warning by the download of the DSD file: - URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children': Timeout of 60 seconds was reached - utils::download.file(dsd_endpoint, temp, dmethod) - - get_eurostat_dsd - class(temp): character - is.na(temp): FALSE - file.size(temp): 17734736 - temp: /tmp/th798/30958541/RtmpDArLUa/file3de23d391c1428 - Trying to extract the DSD from: /tmp/th798/30958541/RtmpDArLUa/file3de23d391c1428 - get_eurostat_dsd - Error during the extraction of the XML from the downloaded DSD file: - AttValue: ' expected [40] - read_xml.character(temp) - get_eurostat_dsd - The dsd_xml is NULL. Please check in a browser the url below. If it provides valid response you can try again to download the DSD. - https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children - - test_restatapi.R.............. 24 tests 1 fails - test_restatapi.R.............. 24 tests 1 fails - test_restatapi.R.............. 24 tests 1 fails - test_restatapi.R.............. 24 tests 1 fails - test_restatapi.R.............. 26 tests 1 fails - test_restatapi.R.............. 27 tests 1 fails - test_restatapi.R.............. 27 tests 1 fails - test_restatapi.R.............. 28 tests 1 fails - test_restatapi.R.............. 30 tests 1 fails - test_restatapi.R.............. 31 tests 1 fails - test_restatapi.R.............. 35 tests 1 fails - test_restatapi.R.............. 37 tests 1 fails - test_restatapi.R.............. 39 tests 1 fails - test_restatapi.R.............. 40 tests 1 fails - test_restatapi.R.............. 41 tests 1 fails - test_restatapi.R.............. 42 tests 1 fails - test_restatapi.R.............. 43 tests 1 fails - test_restatapi.R.............. 44 tests 1 fails - test_restatapi.R.............. 45 tests 1 fails - test_restatapi.R.............. 46 tests 1 fails - test_restatapi.R.............. 47 tests 1 fails - test_restatapi.R.............. 48 tests 1 fails - test_restatapi.R.............. 49 tests 1 fails - test_restatapi.R.............. 50 tests 1 fails - test_restatapi.R.............. 51 tests 1 fails - test_restatapi.R.............. 52 tests 1 fails - test_restatapi.R.............. 53 tests 1 fails - get_eurostat_raw - API version:2 - get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/tus_00age?format=TSV&compressed=true - get_eurostat_raw - class(raw): data.tabledata.frame - get_eurostat_raw - caching in raw: TRUE - get_eurostat_raw - local filter: FALSE - get_eurostat_raw - called from: get_eurostat_rawtestid7 - get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE - get_eurostat_raw - The raw data was cached in memory ('r_tus_00age-2026.08.16-0' in '.restatapi_env'). - - test_restatapi.R.............. 53 tests 1 fails - get_eurostat_dsd - API version:2 - - get_eurostat_dsd - Trying to download the DSD from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/tus_00age?references=children - trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/tus_00age?references=children' - downloaded 3.7 MB - - - get_eurostat_dsd - class(temp): character - is.na(temp): FALSE - file.size(temp): 3901770 - temp: /tmp/th798/30958541/RtmpDArLUa/file3de23d732852ea - Trying to extract the DSD from: /tmp/th798/30958541/RtmpDArLUa/file3de23d732852ea - get_eurostat_dsd - concepts:freq,unit,sex,age,acl00,geo,OBS_FLAG,CONF_STATUS - - extract_dsd - API version:2 - extract_dsd - xml_string_clc://s:Codelist[@id="FREQ"]/s:Code - extract_dsd - xml_string_cln://s:Codelist[@id="FREQ"]/s:Code/c:Name[@xml:lang="en"] - - extract_dsd - API version:2 - extract_dsd - xml_string_clc://s:Codelist[@id="UNIT"]/s:Code - extract_dsd - xml_string_cln://s:Codelist[@id="UNIT"]/s:Code/c:Name[@xml:lang="en"] - - extract_dsd - API version:2 - extract_dsd - xml_string_clc://s:Codelist[@id="SEX"]/s:Code - extract_dsd - xml_string_cln://s:Codelist[@id="SEX"]/s:Code/c:Name[@xml:lang="en"] - - extract_dsd - API version:2 - extract_dsd - xml_string_clc://s:Codelist[@id="AGE"]/s:Code - extract_dsd - xml_string_cln://s:Codelist[@id="AGE"]/s:Code/c:Name[@xml:lang="en"] - - extract_dsd - API version:2 - extract_dsd - xml_string_clc://s:Codelist[@id="ACL00"]/s:Code - extract_dsd - xml_string_cln://s:Codelist[@id="ACL00"]/s:Code/c:Name[@xml:lang="en"] - - extract_dsd - API version:2 - extract_dsd - xml_string_clc://s:Codelist[@id="GEO"]/s:Code - extract_dsd - xml_string_cln://s:Codelist[@id="GEO"]/s:Code/c:Name[@xml:lang="en"] - - extract_dsd - API version:2 - extract_dsd - xml_string_clc://s:Codelist[@id="OBS_FLAG"]/s:Code - extract_dsd - xml_string_cln://s:Codelist[@id="OBS_FLAG"]/s:Code/c:Name[@xml:lang="en"] - - extract_dsd - API version:2 - extract_dsd - xml_string_clc://s:Codelist[@id="CONF_STATUS"]/s:Code - extract_dsd - xml_string_cln://s:Codelist[@id="CONF_STATUS"]/s:Code/c:Name[@xml:lang="en"] - get_eurostat_dsd - DSD NULL:FALSE - get_eurostat_dsd - Trying to download the CC from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/tus_00age - trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/tus_00age' - Content type 'application/vnd.sdmx.structure+xml;version=2.1' length 3844 bytes - ================================================== - downloaded 3844 bytes - - get_eurostat_dsd - Trying to extract the CC from: /tmp/th798/30958541/RtmpDArLUa/file3de23d15ba8a10 - character - number of nodes: 7 - number of cores: 2 - - get_eurostat_dsd - The DSD of the tus_00age dataset was cached in memory ('tus_00age.en.dsd' in '.restatapi_env'). - - test_restatapi.R.............. 53 tests 1 fails create_filter_table - filters class: character; size: 3; filters:TIME_SPHungaryT - - test_restatapi.R.............. 54 tests 1 fails - get_eurostat_raw - API version:2 - get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/avia_par_me?format=TSV&compressed=true - get_eurostat_raw - class(raw): data.tabledata.frame - get_eurostat_raw - caching in raw: TRUE - get_eurostat_raw - local filter: FALSE - get_eurostat_raw - called from: get_eurostat_rawtestid6 - get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE - get_eurostat_raw - The raw data was cached in memory ('r_avia_par_me-2026.08.16-0' in '.restatapi_env'). - - test_restatapi.R.............. 54 tests 1 fails create_filter_table - filters class: character; size: 1; filters:2017:2018 - create_filter_table - filters: 2017:2018; is numeric: FALSE; call parents: 6 - create_filter_table - length df: 1 content df: 2017:2018 - create_filter_table - 2017:2018 date filter length: 1, nchar date_filter: 9 - - test_restatapi.R.............. 55 tests 1 fails - get_eurostat_codelist - API version:2 - get_eurostat_codelist - API version:2 - - get_eurostat_codelist - Trying to download the codelist from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/codelist/ESTAT/SEX - trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/codelist/ESTAT/SEX' - Content type 'application/vnd.sdmx.structure+xml;version=2.1' length 5941 bytes - ================================================== - downloaded 5941 bytes - - Trying to extract the codelist from: /tmp/th798/30958541/RtmpDArLUa/file3de23d687745a9 - get_eurostat_codelist - codelist NULL:TRUE - - test_restatapi.R.............. 55 tests 1 fails - test_restatapi.R.............. 57 tests 1 fails - 4.18.0-553.124.1.el8_10.x86_64 - - test_restatapi.R.............. 57 tests 1 fails - Are we at home:FALSE - - test_restatapi.R.............. 57 tests 1 fails - test_restatapi.R.............. 57 tests 1 fails - get_eurostat_toc - API version:2 - number of cores:2 - get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=fr - trying URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=fr' - downloaded 2.1 MB - - get_eurostat_toc - The TOC was cached in memory ('toc.txt.fr' in '.restatapi_env'). - - test_restatapi.R.............. 57 tests 1 fails - get_eurostat_toc - API version:2 - number of cores:2 - get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=de - trying URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=de' - downloaded 2.0 MB - - get_eurostat_toc - The TOC was cached in memory ('toc.txt.de' in '.restatapi_env'). - - test_restatapi.R.............. 57 tests 1 fails - test_restatapi.R.............. 58 tests 1 fails get_eurostat_data - footer code option value at start: - get_eurostat_data - footer code option value after reset: - get_eurostat_data - id: agr_r_milkpr - get_eurostat_data - select_freq: - - get_eurostat_dsd - API version:2 - - get_eurostat_dsd - Trying to download the DSD from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/agr_r_milkpr?references=children - trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/agr_r_milkpr?references=children' - downloaded 2.9 MB - - - get_eurostat_dsd - class(temp): character - is.na(temp): FALSE - file.size(temp): 3008178 - temp: /tmp/th798/30958541/RtmpDArLUa/file3de23d1122e3ee - Trying to extract the DSD from: /tmp/th798/30958541/RtmpDArLUa/file3de23d1122e3ee - get_eurostat_dsd - concepts:freq,milkitem,dairyprod,geo,OBS_FLAG,CONF_STATUS - - extract_dsd - API version:2 - extract_dsd - xml_string_clc://s:Codelist[@id="FREQ"]/s:Code - extract_dsd - xml_string_cln://s:Codelist[@id="FREQ"]/s:Code/c:Name[@xml:lang="de"] - - extract_dsd - API version:2 - extract_dsd - xml_string_clc://s:Codelist[@id="MILKITEM"]/s:Code - extract_dsd - xml_string_cln://s:Codelist[@id="MILKITEM"]/s:Code/c:Name[@xml:lang="de"] - - extract_dsd - API version:2 - extract_dsd - xml_string_clc://s:Codelist[@id="DAIRYPROD"]/s:Code - extract_dsd - xml_string_cln://s:Codelist[@id="DAIRYPROD"]/s:Code/c:Name[@xml:lang="de"] - - extract_dsd - API version:2 - extract_dsd - xml_string_clc://s:Codelist[@id="GEO"]/s:Code - extract_dsd - xml_string_cln://s:Codelist[@id="GEO"]/s:Code/c:Name[@xml:lang="de"] - - extract_dsd - API version:2 - extract_dsd - xml_string_clc://s:Codelist[@id="OBS_FLAG"]/s:Code - extract_dsd - xml_string_cln://s:Codelist[@id="OBS_FLAG"]/s:Code/c:Name[@xml:lang="de"] - - extract_dsd - API version:2 - extract_dsd - xml_string_clc://s:Codelist[@id="CONF_STATUS"]/s:Code - extract_dsd - xml_string_cln://s:Codelist[@id="CONF_STATUS"]/s:Code/c:Name[@xml:lang="de"] - get_eurostat_dsd - DSD NULL:FALSE - get_eurostat_dsd - Trying to download the CC from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/agr_r_milkpr - trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/agr_r_milkpr' - downloaded 15 KB - - get_eurostat_dsd - Trying to extract the CC from: /tmp/th798/30958541/RtmpDArLUa/file3de23d5ae8bdf1 - character - number of nodes: 5 - number of cores: 2 - - get_eurostat_dsd - The DSD of the agr_r_milkpr dataset was cached in memory ('agr_r_milkpr.de.dsd' in '.restatapi_env'). - create_filter_table - filters class: character; size: 2; filters:BE$Ungarn - get_eurostat_data - date_filter: 2007-06< - create_filter_table - filters class: character; size: 1; filters:2007-06< - create_filter_table - filters: 2007-06<; is numeric: FALSE; call parents: 7 - create_filter_table - length df: 1 content df: 2007-06< - create_filter_table - 2007-06< date filter length: 1, nchar date_filter: 8 - get_eurostat_data - date_filter: 2007-06< nrow dft: 1 - ...BE+HU-?startPeriod=2007-06-01 - https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...BE+HU/?startPeriod=2007-06-01 - trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...BE+HU/?startPeriod=2007-06-01' - Content type 'application/vnd.sdmx.genericdata+xml;version=2.1' length 3959 bytes - ================================================== - downloaded 3959 bytes - - get_eurostat_data - class(xml_leafs):xml_nodeset - get_eurostat_data - number of nodes: 2 - get_eurostat_data - number of cores: 2 - get_eurostat_data - footer code option value after retrieval: - get_eurostat_data - restat - nrow:34; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS - get_eurostat_data - processed restat - nrow:34; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags - get_eurostat_data - restat NULL?:FALSE - id: agr_r_milkpr - filters: ...BE+HU - date filter: ?startPeriod=2007-06-01 - - test_restatapi.R.............. 58 tests 1 fails get_eurostat_data - footer code option value at start: - get_eurostat_data - footer code option value after reset: - get_eurostat_data - id: agr_r_milkpr - get_eurostat_data - select_freq: - - get_eurostat_cache - The 'agr_r_milkpr.en.dsd' was loaded from 'agr_r_milkpr.en.dsd' in '.restatapi_env'. - create_filter_table - filters class: character; size: 2; filters:BE$Hungary - get_eurostat_data - date_filter: 2007-06< - create_filter_table - filters class: character; size: 1; filters:2007-06< - create_filter_table - filters: 2007-06<; is numeric: FALSE; call parents: 7 - create_filter_table - length df: 1 content df: 2007-06< - create_filter_table - 2007-06< date filter length: 1, nchar date_filter: 8 - get_eurostat_data - date_filter: 2007-06< nrow dft: 1 - ...BE+HU-?startPeriod=2007-06-01 - https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...BE+HU/?startPeriod=2007-06-01 - trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...BE+HU/?startPeriod=2007-06-01' - Content type 'application/vnd.sdmx.genericdata+xml;version=2.1' length 3959 bytes - ================================================== - downloaded 3959 bytes - - get_eurostat_data - class(xml_leafs):xml_nodeset - get_eurostat_data - number of nodes: 2 - get_eurostat_data - number of cores: 2 - get_eurostat_data - footer code option value after retrieval: - get_eurostat_data - restat - nrow:34; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS - get_eurostat_data - processed restat - nrow:34; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags - get_eurostat_data - restat NULL?:FALSE - id: agr_r_milkpr - filters: ...BE+HU - date filter: ?startPeriod=2007-06-01 - - test_restatapi.R.............. 58 tests 1 fails - test_restatapi.R.............. 59 tests 1 fails - clean_restatapi_cache - All objects (outside of 'cfg', 'rav', 'cc' and 'dmethod') are removed from '.restatapi_env'. - clean_restatapi_cache - Deleted all .rds files from /tmp/th798/30958541/RtmpDArLUa - - test_restatapi.R.............. 59 tests 1 fails - - - - - There are skipped tests:2-7,8,9,14-17,18,22-29,33-34,44,49-50,54 - - test_restatapi.R.............. 59 tests 1 fails - - Skipped tests: 2-7,8,9,14-17,18,22-29,33-34,44,49-50,54 - config version: 2 - - test_restatapi.R.............. 59 tests 1 fails - test_restatapi.R.............. 59 tests 1 fails 10.6s - ----- FAILED[data]: test_restatapi.R<169--169> - call| expect_true(is.null(dt8)) - diff| Expected TRUE, got FALSE - Error: 1 out of 59 tests failed - Execution halted * checking PDF version of manual ... OK * DONE -Status: 1 ERROR +Status: OK > library(data.table, lib.loc=R.home("library")) Attaching package: 'data.table' The following object is masked from 'package:base': %notin% > (sig.diff.dt <- myDiff(Rvers)) Key: checking master release 1: tests OK ERROR > > ## If there are significant differences, use git bisect to find when > ## they started. > if(nrow(sig.diff.dt)){ + dt.git <- file.path(task.dir, "data.table.git") + unlink(dt.git, recursive=TRUE, force=TRUE) + system(paste("cd ~/R/data.table && git fetch --tags")) + system(paste("git clone ~/R/data.table", dt.git)) + release.tag <- gsub(".tar.gz|.*_", "", cargs[["release"]]) + rev.parse.cmd <- paste( + "cd", dt.git, "&& git rev-parse master") + master.sha <- system(rev.parse.cmd, intern=TRUE) + merge.base.cmd <- paste( + "cd", dt.git, "&& git merge-base master", release.tag) + merge.base.sha <- system(merge.base.cmd, intern=TRUE) + old.sha <- merge.base.sha + run_R <- file.path(proj.dir, "install_dt_then_check_dep.R") + sig.diff.dt[, first.bad.commit := NA_character_] + sig.diff.dt[, comments := NA_character_] + for(diff.i in 1:nrow(sig.diff.dt)){ + sig.diff.row <- sig.diff.dt[diff.i] + bisect.cmd <- paste( + "cd", dt.git, "&&", + "git bisect start &&", + "git bisect old", old.sha, "&&", + "git bisect new master &&", + "git bisect run", + R.home('bin/Rscript'), + run_R, + shQuote(sig.diff.row$checking), + sig.diff.row$release, + rev.dep.release.tar.gz, + release.tag) + print(bisect.cmd) + bisect.out <- system(bisect.cmd, intern=TRUE) + cat(bisect.out,sep="\n") + if(is.null(attr(bisect.out,"status"))){ + first.bad.sha <- nc::capture_all_str( + bisect.out, + sha="[0-9a-f]+", + " is the first new commit")$sha + parent.cmd <- paste( + "cd ~/R/data.table && git log --pretty=%P -n 1", + first.bad.sha) + parent.sha <- system(parent.cmd, intern=TRUE) + sig.diff.dt[diff.i, first.bad.commit := first.bad.sha] + parent.msg <- paste0("parent=", parent.sha) + this.comment <- if(parent.sha==old.sha){ + paste(parent.msg, "same as git bisect old") + }else if(first.bad.sha==master.sha){ + paste("same as git bisect new=master,", parent.msg) + }else{ + parent.msg + } + sig.diff.dt[diff.i, comments := this.comment] + } + } + ## add CRAN column. + sig.diff.dt[, CRAN := { + flavor <- get_flavor(Rvers) + details <- data.table(flavor=unique(flavor))[, { + base <- "https://www.r-project.org/nosvn/R.check/" + u <- paste0(base, flavor, "/", rev.dep, "-00check.txt") + check.txt <- tempfile() + tryCatch({ + download.file(u, check.txt, quiet=TRUE) + }, error=function(e){ + NULL + }) + check.lines <- if(file.exists(check.txt)){ + readLines(check.txt,encoding="UTF-8") + }else{ + "" + } + repl.lines <- gsub("[\u2018\u2019]", "'", check.lines) + ##gsub("[‘’]", "'", check.lines) does not work with LC_ALL=C. + myStatus(line.vec=repl.lines) + }, by=flavor] + select.dt <- data.table(flavor, checking) + details[select.dt, msg, on=.(flavor, checking)] + }] + dir.create(file.path(job.dir, Rvers)) + diffs.csv <- file.path(job.dir, Rvers, "significant_differences.csv") + data.table::fwrite(sig.diff.dt, diffs.csv) + print(sig.diff.dt) + } Cloning into '/tmp/th798/30958541/R-devel/1314/data.table.git'... done. [1] "cd /tmp/th798/30958541/R-devel/1314/data.table.git && git bisect start && git bisect old e455714d92b73f716913d3bdb225c90ac67e9d1c && git bisect new master && git bisect run /home/th798/R/R-devel/bin/Rscript ~/genomic-ml/data.table-revdeps/install_dt_then_check_dep.R 'tests' ERROR /projects/genomic-ml/CRAN/src/contrib/restatapi_0.25.0.tar.gz 1.18.4" Installing package into '/tmp/th798/30958541/R-devel/1314/library' (as 'lib' is unspecified) * installing *source* package 'data.table' ... ** this is package 'data.table' version '1.18.4' ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' installing to /tmp/th798/30958541/R-devel/1314/library/00LOCK-data.table.git/00new/data.table/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (data.table) See '/tmp/th798/30958541/R-devel/1314/data.table.git/restatapi.Rcheck/00check.log' for details. Installing package into '/tmp/th798/30958541/R-devel/1314/library' (as 'lib' is unspecified) * installing *source* package 'data.table' ... ** this is package 'data.table' version '1.18.4' ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' installing to /tmp/th798/30958541/R-devel/1314/library/00LOCK-data.table.git/00new/data.table/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (data.table) Installing package into '/tmp/th798/30958541/R-devel/1314/library' (as 'lib' is unspecified) * installing *source* package 'data.table' ... ** this is package 'data.table' version '1.18.4' ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' installing to /tmp/th798/30958541/R-devel/1314/library/00LOCK-data.table.git/00new/data.table/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (data.table) See '/tmp/th798/30958541/R-devel/1314/data.table.git/restatapi.Rcheck/00check.log' for details. Installing package into '/tmp/th798/30958541/R-devel/1314/library' (as 'lib' is unspecified) * installing *source* package 'data.table' ... ** this is package 'data.table' version '1.18.4' ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' installing to /tmp/th798/30958541/R-devel/1314/library/00LOCK-data.table.git/00new/data.table/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (data.table) Installing package into '/tmp/th798/30958541/R-devel/1314/library' (as 'lib' is unspecified) * installing *source* package 'data.table' ... ** this is package 'data.table' version '1.18.4' ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' installing to /tmp/th798/30958541/R-devel/1314/library/00LOCK-data.table.git/00new/data.table/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (data.table) See '/tmp/th798/30958541/R-devel/1314/data.table.git/restatapi.Rcheck/00check.log' for details. Installing package into '/tmp/th798/30958541/R-devel/1314/library' (as 'lib' is unspecified) * installing *source* package 'data.table' ... ** this is package 'data.table' version '1.18.4' ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' installing to /tmp/th798/30958541/R-devel/1314/library/00LOCK-data.table.git/00new/data.table/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (data.table) Installing package into '/tmp/th798/30958541/R-devel/1314/library' (as 'lib' is unspecified) * installing *source* package 'data.table' ... ** this is package 'data.table' version '1.18.4' ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' installing to /tmp/th798/30958541/R-devel/1314/library/00LOCK-data.table.git/00new/data.table/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (data.table) Installing package into '/tmp/th798/30958541/R-devel/1314/library' (as 'lib' is unspecified) * installing *source* package 'data.table' ... ** this is package 'data.table' version '1.18.4' ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' installing to /tmp/th798/30958541/R-devel/1314/library/00LOCK-data.table.git/00new/data.table/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (data.table) status: waiting for both good and bad commits status: waiting for bad commit, 1 good commit known Bisecting: 92 revisions left to test after this (roughly 7 steps) [9a8f6649cb827cb2228d917aa3eee06bbd1d4115] Bump codecov/codecov-action from 5 to 6 (#7683) running '/home/th798/R/R-devel/bin/Rscript' '/home/th798/genomic-ml/data.table-revdeps/install_dt_then_check_dep.R' 'tests' 'ERROR' '/projects/genomic-ml/CRAN/src/contrib/restatapi_0.25.0.tar.gz' '1.18.4' checking "tests" expected "ERROR" rev_dep_tar_gz "/projects/genomic-ml/CRAN/src/contrib/restatapi_0.25.0.tar.gz" dt_release_version "1.18.4" zlib 1.2.13 is available ok * checking if OpenMP works with CFLAGS='' LIBS=''... no * checking if OpenMP works with CFLAGS='$(SHLIB_OPENMP_CFLAGS)' LIBS='$(SHLIB_OPENMP_CFLAGS)'... yes /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c assign.c -o assign.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c between.c -o between.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c bmerge.c -o bmerge.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c chmatch.c -o chmatch.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c cj.c -o cj.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c coalesce.c -o coalesce.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c dogroups.c -o dogroups.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fastmean.c -o fastmean.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fcast.c -o fcast.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fifelse.c -o fifelse.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fmelt.c -o fmelt.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c forder.c -o forder.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c frank.c -o frank.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fread.c -o fread.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c freadR.c -o freadR.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c froll.c -o froll.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c frollR.c -o frollR.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c frolladaptive.c -o frolladaptive.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c frollapply.c -o frollapply.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fsort.c -o fsort.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fwrite.c -o fwrite.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fwriteR.c -o fwriteR.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c gsumm.c -o gsumm.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c hash.c -o hash.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c idatetime.c -o idatetime.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c ijoin.c -o ijoin.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c inrange.c -o inrange.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c mergelist.c -o mergelist.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c nafill.c -o nafill.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c negate.c -o negate.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c nqrecreateindices.c -o nqrecreateindices.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c openmp-utils.c -o openmp-utils.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c programming.c -o programming.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c quickselect.c -o quickselect.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c rbindlist.c -o rbindlist.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c reorder.c -o reorder.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c shellsort.c -o shellsort.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c shift.c -o shift.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c snprintf.c -o snprintf.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c subset.c -o subset.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c transpose.c -o transpose.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c types.c -o types.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c uniqlist.c -o uniqlist.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c utils.c -o utils.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c vecseq.c -o vecseq.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c wrappers.c -o wrappers.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o data.table.so assign.o between.o bmerge.o chmatch.o cj.o coalesce.o dogroups.o fastmean.o fcast.o fifelse.o fmelt.o forder.o frank.o fread.o freadR.o froll.o frollR.o frolladaptive.o frollapply.o fsort.o fwrite.o fwriteR.o gsumm.o hash.o idatetime.o ijoin.o init.o inrange.o mergelist.o nafill.o negate.o nqrecreateindices.o openmp-utils.o programming.o quickselect.o rbindlist.o reorder.o shellsort.o shift.o snprintf.o subset.o transpose.o types.o uniqlist.o utils.o vecseq.o wrappers.o -fvisibility=hidden -fopenmp -L/home/th798/.conda/envs/emacs1/lib -lz PKG_CFLAGS = -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include PKG_LIBS = -fvisibility=hidden -fopenmp -L/home/th798/.conda/envs/emacs1/lib -lz if [ "data.table.so" != "data_table.so" ]; then mv data.table.so data_table.so; fi if [ "" != "Windows_NT" ] && [ `uname -s` = 'Darwin' ]; then install_name_tool -id data_table.so data_table.so; fi * using log directory '/tmp/th798/30958541/R-devel/1314/data.table.git/restatapi.Rcheck' * using R Under development (unstable) (2026-08-15 r90413) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Spack GCC) 12.2.0 GNU Fortran (Spack GCC) 12.2.0 * running under: Red Hat Enterprise Linux 8.10 (Ootpa) * using session charset: ASCII * current time: 2026-08-16 11:02:15 UTC * checking for file 'restatapi/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'restatapi' version '0.25.0' * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package 'restatapi' can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking code files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking loading without being on the library search path ... OK * checking whether startup messages can be suppressed ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking examples ... OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... Running 'tinytest.R' ERROR Running the tests in 'tests/tinytest.R' failed. Complete output: > if ( requireNamespace("tinytest", quietly=TRUE) ){ + home <- length(unclass(packageVersion("restatapi"))[[1]]) == 4 + tinytest::test_package("restatapi", at_home = home) + } restatapi: - version 0.25.0 - config file with the API version 2 loaded from GitHub (the 'current' API version number is 2). - 4 from the 64 cores are used for parallel computing, can be changed with 'options(restatapi_cores=...)' - 'auto' method will be used for file download, can be changed with 'options(restatapi_dmethod=...)' - the Table of contents (TOC) was not pre-loaded into the deafult cache ('.restatapi_env'). test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests clean_restatapi_cache - All objects (outside of 'cfg', 'rav', 'cc' and 'dmethod') are removed from '.restatapi_env'. test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml get_eurostat_toc - Warning by the download of the xml version of the TOC file: URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached readBin(3, "raw", 65536) get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. test_restatapi.R.............. 0 tests get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=en trying URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=en' downloaded 1.9 MB get_eurostat_toc - The TOC was cached in memory ('toc.txt.en' in '.restatapi_env'). test_restatapi.R.............. 0 tests get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml get_eurostat_toc - Warning by the download of the xml version of the TOC file: URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached readBin(3, "raw", 65536) get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. test_restatapi.R.............. 0 tests test_restatapi.R.............. 1 tests OK test_restatapi.R.............. 1 tests OK get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml get_eurostat_toc - Warning by the download of the xml version of the TOC file: URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached readBin(3, "raw", 65536) get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. test_restatapi.R.............. 1 tests OK get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml get_eurostat_toc - Warning by the download of the xml version of the TOC file: URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached readBin(3, "raw", 65536) get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. test_restatapi.R.............. 1 tests OK get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml get_eurostat_toc - Warning by the download of the xml version of the TOC file: URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached readBin(3, "raw", 65536) get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. test_restatapi.R.............. 1 tests OK test_restatapi.R.............. 1 tests OK test_restatapi.R.............. 1 tests OK trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/text?references=children' test_restatapi.R.............. 2 tests OK get_eurostat_dsd - API version:2 get_eurostat_dsd - Trying to download the DSD from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/NAMA_10_GDP?references=children trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/NAMA_10_GDP?references=children' downloaded 3.4 MB get_eurostat_dsd - class(temp): character - is.na(temp): FALSE - file.size(temp): 3591544 - temp: /tmp/th798/30958541/RtmpyHGeRw/file487cb51648b1a Trying to extract the DSD from: /tmp/th798/30958541/RtmpyHGeRw/file487cb51648b1a get_eurostat_dsd - concepts:freq,unit,na_item,geo,OBS_FLAG,CONF_STATUS extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="FREQ"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="FREQ"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="UNIT"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="UNIT"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="NA_ITEM"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="NA_ITEM"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="GEO"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="GEO"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="OBS_FLAG"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="OBS_FLAG"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="CONF_STATUS"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="CONF_STATUS"]/s:Code/c:Name[@xml:lang="en"] get_eurostat_dsd - DSD NULL:FALSE get_eurostat_dsd - Trying to download the CC from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/NAMA_10_GDP trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/NAMA_10_GDP' Content type 'application/vnd.sdmx.structure+xml;version=2.1' length 5597 bytes ================================================== downloaded 5597 bytes get_eurostat_dsd - Trying to extract the CC from: /tmp/th798/30958541/RtmpyHGeRw/file487cb4f7451fb character number of nodes: 5 number of cores: 2 get_eurostat_dsd - The DSD of the NAMA_10_GDP dataset was cached in memory ('NAMA_10_GDP.en.dsd' in '.restatapi_env'). test_restatapi.R.............. 2 tests OK test_restatapi.R.............. 5 tests OK test_restatapi.R.............. 5 tests OK test_restatapi.R.............. 5 tests OK test_restatapi.R.............. 5 tests OK get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: htec_cis3 get_eurostat_data - select_freq: get_eurostat_data - Trying to get from cache: b_htec_cis3-2026.08.16-1-1 get_eurostat_bulk - API version:2 get_eurostat_bulk - class of id, cache, update_cache, cache_dir, compress_file, stringsAsFactors, keep_flags, check_toc, melt, verbose: character - logical -logical - NULL - logical - logical - logical - logical - logical - logical get_eurostat_raw - API version:2 get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/htec_cis3?format=TSV&compressed=true get_eurostat_raw - class(raw): data.tabledata.frame get_eurostat_raw - caching in raw: FALSE get_eurostat_raw - local filter: FALSE get_eurostat_raw - called from: restatapi::get_eurostat_rawidtxtcacheupdate_cachecache_dircompress_filestringsAsFactorskeep_flagscheck_tocTRUEverbose get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE get_eurostat_data - The data was downloaded with bulk download. get_eurostat_data - bulk restat - nrow:1006; ncol:7; colnames:indic_in/nace_r1/unit/geo/time/values/flags get_eurostat_data - cflags:TRUE get_eurostat_data - restat - nrow:1006; ncol:7; colnames:indic_in/nace_r1/unit/geo/time/values/flags get_eurostat_data - processed restat - nrow:1006; ncol:7; colnames:indic_in/nace_r1/unit/geo/time/values/flags get_eurostat_data - The data was cached in memory ('b_htec_cis3-2026.08.16-1-1' in '.restatapi_env'). get_eurostat_data - restat NULL?:FALSE id: htec_cis3 filters: date filter: test_restatapi.R.............. 5 tests OK test_restatapi.R.............. 5 tests OK get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: htec_cis3 get_eurostat_data - select_freq: get_eurostat_data - Trying to get from cache: b_htec_cis3-2026.08.16-0-0 get_eurostat_cache - The 'b_htec_cis3-2026.08.16-0-0' was loaded from 'b_htec_cis3-2026.08.16-1-1' in '.restatapi_env'. get_eurostat_data - The data was loaded from cache. get_eurostat_data - cached restat - nrow:1006; ncol:7; colnames:indic_in/nace_r1/unit/geo/time/values/flags get_eurostat_data - restat - nrow:1006; ncol:7; colnames:indic_in/nace_r1/unit/geo/time/values/flags get_eurostat_data - processed restat - nrow:1006; ncol:6; colnames:indic_in/nace_r1/unit/geo/time/values get_eurostat_data - The data was cached in memory ('b_htec_cis3-2026.08.16-0-0' in '.restatapi_env'). get_eurostat_data - restat NULL?:FALSE id: htec_cis3 filters: date filter: test_restatapi.R.............. 5 tests OK test_restatapi.R.............. 5 tests OK test_restatapi.R.............. 8 tests OK test_restatapi.R.............. 8 tests OK get_eurostat_raw - API version:2 get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr?format=sdmx_2.1_structured&compressed=true get_eurostat_raw - file format: gz get_compressed_sdmx - url:https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr?format=sdmx_2.1_structured&compressed=true get_compressed_sdmx - format:gz get_compressed_sdmx - xml NULL:FALSE get_eurostat_raw - class(xml_leafs): xml_nodeset get_eurostat_raw - number of nodes: 583 get_eurostat_raw - number of cores: 2 get_eurostat_raw - caching in raw: TRUE get_eurostat_raw - local filter: FALSE get_eurostat_raw - called from: get_eurostat_rawtestid4xmlTRUETRUE get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE get_eurostat_raw - The raw data was cached in memory ('r_agr_r_milkpr-2026.08.16-1' in '.restatapi_env'). test_restatapi.R.............. 8 tests OK get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_data - Trying to get from cache: b_agr_r_milkpr-2026.08.16-1-0 get_eurostat_cache - The 'b_agr_r_milkpr-2026.08.16-1-0' was loaded from 'r_agr_r_milkpr-2026.08.16-1' in '.restatapi_env'. get_eurostat_data - The data was loaded from cache. get_eurostat_data - cached restat - nrow:11870; ncol:7; colnames:geo/milkitem/freq/dairyprod/TIME_PERIOD/OBS_VALUE/OBS_FLAG get_eurostat_data - restat - nrow:11870; ncol:7; colnames:geo/milkitem/freq/dairyprod/TIME_PERIOD/OBS_VALUE/OBS_FLAG get_eurostat_data - processed restat - nrow:11599; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - The data was cached in memory ('b_agr_r_milkpr-2026.08.16-1-0' in '.restatapi_env'). get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: date filter: test_restatapi.R.............. 8 tests OK get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_data - date_filter: 2008 create_filter_table - filters class: numeric; size: 1; filters:2008 create_filter_table - filters: 2008; is numeric: TRUE; call parents: 7 create_filter_table - length df: 1 content df: 2008 create_filter_table - 2008 date filter length: 1, nchar date_filter: 4 get_eurostat_data - date_filter: 2008 nrow dft: 1 -?startPeriod=2008-01-01&endPeriod=2008-12-31 https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2008-01-01&endPeriod=2008-12-31 trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2008-01-01&endPeriod=2008-12-31' downloaded 106 KB get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 410 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:410; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS get_eurostat_data - processed restat - nrow:390; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: date filter: ?startPeriod=2008-01-01&endPeriod=2008-12-31 test_restatapi.R.............. 8 tests OK test_restatapi.R.............. 9 tests OK test_restatapi.R.............. 10 tests OK get_eurostat_raw - API version:2 get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/irt_h_eurcoe_d?format=TSV&compressed=true get_eurostat_raw - class(raw): data.tabledata.frame get_eurostat_raw - caching in raw: TRUE get_eurostat_raw - local filter: FALSE get_eurostat_raw - called from: get_eurostat_rawtestid5TRUE get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE get_eurostat_raw - The raw data was cached in memory ('r_irt_h_eurcoe_d-2026.08.16-0' in '.restatapi_env'). test_restatapi.R.............. 10 tests OK get_eurostat_bulk - API version:2 get_eurostat_bulk - class of id, cache, update_cache, cache_dir, compress_file, stringsAsFactors, keep_flags, check_toc, melt, verbose: character - logical -logical - NULL - logical - logical - logical - logical - logical - logical get_eurostat_raw - API version:2 get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/irt_h_eurcoe_d?format=TSV&compressed=true get_eurostat_raw - class(raw): data.tabledata.frame get_eurostat_raw - caching in raw: FALSE get_eurostat_raw - local filter: FALSE get_eurostat_raw - called from: restatapi::get_eurostat_rawidtxtcacheupdate_cachecache_dircompress_filestringsAsFactorskeep_flagscheck_tocTRUEverbose get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE get_eurostat_bulk - The bulk data was cached in memory ('b_irt_h_eurcoe_d-2026.08.16-1-0' in '.restatapi_env'). test_restatapi.R.............. 10 tests OK get_eurostat_raw - API version:2 get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml get_eurostat_toc - Warning by the download of the xml version of the TOC file: URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached readBin(6, "raw", 65536) get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. The TOC is missing. Could not get the download link. test_restatapi.R.............. 10 tests OK get_eurostat_bulk - API version:2 get_eurostat_cache - The 'b_irt_h_eurcoe_d-2026.08.16-1-0' was loaded from 'b_irt_h_eurcoe_d-2026.08.16-1-0' in '.restatapi_env'. get_eurostat_bulk - The bulk data was cached previously in memory ('b_irt_h_eurcoe_d-2026.08.16-1-0' in '.restatapi_env'). It remained unchanged. test_restatapi.R.............. 10 tests OK test_restatapi.R.............. 11 tests OK test_restatapi.R.............. 11 tests OK trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/agr_r_milkpr?references=children' downloaded 2.9 MB trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/agr_r_milkpr' downloaded 15 KB test_restatapi.R.............. 12 tests OK test_restatapi.R.............. 13 tests OK test_restatapi.R.............. 14 tests OK test_restatapi.R.............. 15 tests OK test_restatapi.R.............. 18 tests OK trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children' downloaded 12.9 MB trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/avia_par_me/?startPeriod=2017-03-01&endPeriod=2017-03-31' downloaded 58 KB trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children' downloaded 12.7 MB test_restatapi.R.............. 19 tests OK test_restatapi.R.............. 20 tests 1 fails test_restatapi.R.............. 20 tests 1 fails test_restatapi.R.............. 20 tests 1 fails get_eurostat_cache - The 'agr_r_milkpr.en.dsd' was loaded from 'agr_r_milkpr.en.dsd' in '.restatapi_env'. test_restatapi.R.............. 20 tests 1 fails get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_cache - The 'agr_r_milkpr.en.dsd' was loaded from 'agr_r_milkpr.en.dsd' in '.restatapi_env'. create_filter_table - filters class: character; size: 1; filters:AT ...AT- https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT/ trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT/' Content type 'application/vnd.sdmx.genericdata+xml;version=2.1' length 3279 bytes ================================================== downloaded 3279 bytes get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 1 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:29; ncol:6; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue get_eurostat_data - processed restat - nrow:29; ncol:5; colnames:geo/milkitem/dairyprod/time/values get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: ...AT date filter: get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_cache - The 'agr_r_milkpr.en.dsd' was loaded from 'agr_r_milkpr.en.dsd' in '.restatapi_env'. create_filter_table - filters class: character; size: 1; filters:AT ...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34- https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34/ trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34/' downloaded 31 KB get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 13 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:377; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS get_eurostat_data - processed restat - nrow:377; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: ...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34 date filter: get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_data - date_filter: 2016 create_filter_table - filters class: numeric; size: 1; filters:2016 create_filter_table - filters: 2016; is numeric: TRUE; call parents: 8 create_filter_table - length df: 1 content df: 2016 create_filter_table - 2016 date filter length: 1, nchar date_filter: 4 get_eurostat_data - date_filter: 2016 nrow dft: 1 -?startPeriod=2016-01-01&endPeriod=2016-12-31 https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2016-01-01&endPeriod=2016-12-31 trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2016-01-01&endPeriod=2016-12-31' downloaded 137 KB get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 508 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:508; ncol:6; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue get_eurostat_data - processed restat - nrow:494; ncol:5; colnames:geo/milkitem/dairyprod/time/values get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: date filter: ?startPeriod=2016-01-01&endPeriod=2016-12-31 get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_data - date_filter: 2016 create_filter_table - filters class: character; size: 1; filters:2016 create_filter_table - filters: 2016; is numeric: FALSE; call parents: 8 create_filter_table - length df: 1 content df: 2016 create_filter_table - 2016 date filter length: 1, nchar date_filter: 4 get_eurostat_data - date_filter: 2016 nrow dft: 1 -?startPeriod=2016-01-01&endPeriod=2016-12-31 https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2016-01-01&endPeriod=2016-12-31 trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2016-01-01&endPeriod=2016-12-31' downloaded 137 KB get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 508 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:508; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS get_eurostat_data - processed restat - nrow:494; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: date filter: ?startPeriod=2016-01-01&endPeriod=2016-12-31 get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_cache - The 'agr_r_milkpr.en.dsd' was loaded from 'agr_r_milkpr.en.dsd' in '.restatapi_env'. create_filter_table - filters class: character; size: 1; filters:AT ...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34+EL11+EL3+EL30+EL51+ES51+ES52+HR+HR02+HR03+HR04+HR06+HR01+ITF5+LV+LV0+LV00+HU22+RO4+SK01+NO01+NO03+NO04+NO05+UKD3+UKK1+TR2+TR5+TR63+TR72+TR8+TR83+TRB1+TRC3- https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34+EL11+EL3+EL30+EL51+ES51+ES52+HR+HR02+HR03+HR04+HR06+HR01+ITF5+LV+LV0+LV00+HU22+RO4+SK01+NO01+NO03+NO04+NO05+UKD3+UKK1+TR2+TR5+TR63+TR72+TR8+TR83+TRB1+TRC3/ trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34+EL11+EL3+EL30+EL51+ES51+ES52+HR+HR02+HR03+HR04+HR06+HR01+ITF5+LV+LV0+LV00+HU22+RO4+SK01+NO01+NO03+NO04+NO05+UKD3+UKK1+TR2+TR5+TR63+TR72+TR8+TR83+TRB1+TRC3/' downloaded 83 KB get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 46 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:1004; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS get_eurostat_data - processed restat - nrow:993; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: ...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34+EL11+EL3+EL30+EL51+ES51+ES52+HR+HR02+HR03+HR04+HR06+HR01+ITF5+LV+LV0+LV00+HU22+RO4+SK01+NO01+NO03+NO04+NO05+UKD3+UKK1+TR2+TR5+TR63+TR72+TR8+TR83+TRB1+TRC3 date filter: test_restatapi.R.............. 24 tests 1 fails get_eurostat_dsd - API version:2 get_eurostat_dsd - Trying to download the DSD from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children' downloaded 18.2 MB get_eurostat_dsd - class(temp): character - is.na(temp): FALSE - file.size(temp): 19069969 - temp: /tmp/th798/30958541/RtmpyHGeRw/file487cb653efb1c Trying to extract the DSD from: /tmp/th798/30958541/RtmpyHGeRw/file487cb653efb1c get_eurostat_dsd - concepts:freq,unit,tra_meas,airp_pr,OBS_FLAG,CONF_STATUS extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="FREQ"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="FREQ"]/s:Code/c:Name[@xml:lang="de"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="UNIT"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="UNIT"]/s:Code/c:Name[@xml:lang="de"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="TRA_MEAS"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="TRA_MEAS"]/s:Code/c:Name[@xml:lang="de"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="AIRP_PR"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="AIRP_PR"]/s:Code/c:Name[@xml:lang="de"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="OBS_FLAG"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="OBS_FLAG"]/s:Code/c:Name[@xml:lang="de"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="CONF_STATUS"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="CONF_STATUS"]/s:Code/c:Name[@xml:lang="de"] get_eurostat_dsd - DSD NULL:FALSE get_eurostat_dsd - Trying to download the CC from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/avia_par_me trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/avia_par_me' Content type 'application/vnd.sdmx.structure+xml;version=2.1' length 7996 bytes ================================================== downloaded 7996 bytes get_eurostat_dsd - Trying to extract the CC from: /tmp/th798/30958541/RtmpyHGeRw/file487cb3c9c20b1 character number of nodes: 5 number of cores: 2 get_eurostat_dsd - The DSD of the avia_par_me dataset was cached in memory ('avia_par_me.de.dsd' in '.restatapi_env'). test_restatapi.R.............. 24 tests 1 fails test_restatapi.R.............. 24 tests 1 fails test_restatapi.R.............. 24 tests 1 fails test_restatapi.R.............. 24 tests 1 fails test_restatapi.R.............. 26 tests 1 fails test_restatapi.R.............. 27 tests 1 fails test_restatapi.R.............. 28 tests 1 fails test_restatapi.R.............. 29 tests 1 fails test_restatapi.R.............. 31 tests 1 fails test_restatapi.R.............. 32 tests 1 fails test_restatapi.R.............. 36 tests 1 fails test_restatapi.R.............. 38 tests 1 fails test_restatapi.R.............. 40 tests 1 fails test_restatapi.R.............. 41 tests 1 fails test_restatapi.R.............. 42 tests 1 fails test_restatapi.R.............. 43 tests 1 fails test_restatapi.R.............. 44 tests 1 fails test_restatapi.R.............. 45 tests 1 fails test_restatapi.R.............. 46 tests 1 fails test_restatapi.R.............. 47 tests 1 fails test_restatapi.R.............. 48 tests 1 fails test_restatapi.R.............. 49 tests 1 fails test_restatapi.R.............. 50 tests 1 fails test_restatapi.R.............. 51 tests 1 fails test_restatapi.R.............. 52 tests 1 fails test_restatapi.R.............. 53 tests 1 fails test_restatapi.R.............. 54 tests 1 fails get_eurostat_raw - API version:2 get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/tus_00age?format=TSV&compressed=true get_eurostat_raw - class(raw): data.tabledata.frame get_eurostat_raw - caching in raw: TRUE get_eurostat_raw - local filter: FALSE get_eurostat_raw - called from: get_eurostat_rawtestid7 get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE get_eurostat_raw - The raw data was cached in memory ('r_tus_00age-2026.08.16-0' in '.restatapi_env'). test_restatapi.R.............. 54 tests 1 fails get_eurostat_dsd - API version:2 get_eurostat_dsd - Trying to download the DSD from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/tus_00age?references=children trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/tus_00age?references=children' downloaded 3.7 MB get_eurostat_dsd - class(temp): character - is.na(temp): FALSE - file.size(temp): 3901770 - temp: /tmp/th798/30958541/RtmpyHGeRw/file487cb570d127e Trying to extract the DSD from: /tmp/th798/30958541/RtmpyHGeRw/file487cb570d127e get_eurostat_dsd - concepts:freq,unit,sex,age,acl00,geo,OBS_FLAG,CONF_STATUS extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="FREQ"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="FREQ"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="UNIT"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="UNIT"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="SEX"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="SEX"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="AGE"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="AGE"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="ACL00"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="ACL00"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="GEO"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="GEO"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="OBS_FLAG"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="OBS_FLAG"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="CONF_STATUS"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="CONF_STATUS"]/s:Code/c:Name[@xml:lang="en"] get_eurostat_dsd - DSD NULL:FALSE get_eurostat_dsd - Trying to download the CC from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/tus_00age trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/tus_00age' Content type 'application/vnd.sdmx.structure+xml;version=2.1' length 3844 bytes ================================================== downloaded 3844 bytes get_eurostat_dsd - Trying to extract the CC from: /tmp/th798/30958541/RtmpyHGeRw/file487cb7e2c36e8 character number of nodes: 7 number of cores: 2 get_eurostat_dsd - The DSD of the tus_00age dataset was cached in memory ('tus_00age.en.dsd' in '.restatapi_env'). test_restatapi.R.............. 54 tests 1 fails create_filter_table - filters class: character; size: 3; filters:TIME_SPHungaryT test_restatapi.R.............. 55 tests 1 fails get_eurostat_raw - API version:2 get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/avia_par_me?format=TSV&compressed=true get_eurostat_raw - class(raw): data.tabledata.frame get_eurostat_raw - caching in raw: TRUE get_eurostat_raw - local filter: FALSE get_eurostat_raw - called from: get_eurostat_rawtestid6 get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE get_eurostat_raw - The raw data was cached in memory ('r_avia_par_me-2026.08.16-0' in '.restatapi_env'). test_restatapi.R.............. 55 tests 1 fails create_filter_table - filters class: character; size: 1; filters:2017:2018 create_filter_table - filters: 2017:2018; is numeric: FALSE; call parents: 6 create_filter_table - length df: 1 content df: 2017:2018 create_filter_table - 2017:2018 date filter length: 1, nchar date_filter: 9 test_restatapi.R.............. 56 tests 1 fails get_eurostat_codelist - API version:2 get_eurostat_codelist - API version:2 get_eurostat_codelist - Trying to download the codelist from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/codelist/ESTAT/SEX trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/codelist/ESTAT/SEX' Content type 'application/vnd.sdmx.structure+xml;version=2.1' length 5941 bytes ================================================== downloaded 5941 bytes Trying to extract the codelist from: /tmp/th798/30958541/RtmpyHGeRw/file487cb5fb14a4f get_eurostat_codelist - codelist NULL:TRUE test_restatapi.R.............. 56 tests 1 fails test_restatapi.R.............. 58 tests 1 fails 4.18.0-553.124.1.el8_10.x86_64 test_restatapi.R.............. 58 tests 1 fails Are we at home:FALSE test_restatapi.R.............. 58 tests 1 fails test_restatapi.R.............. 58 tests 1 fails get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=fr trying URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=fr' downloaded 2.1 MB get_eurostat_toc - The TOC was cached in memory ('toc.txt.fr' in '.restatapi_env'). test_restatapi.R.............. 58 tests 1 fails get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=de trying URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=de' downloaded 2.0 MB get_eurostat_toc - The TOC was cached in memory ('toc.txt.de' in '.restatapi_env'). test_restatapi.R.............. 58 tests 1 fails test_restatapi.R.............. 59 tests 1 fails get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_dsd - API version:2 get_eurostat_dsd - Trying to download the DSD from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/agr_r_milkpr?references=children trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/agr_r_milkpr?references=children' downloaded 2.9 MB get_eurostat_dsd - class(temp): character - is.na(temp): FALSE - file.size(temp): 3008178 - temp: /tmp/th798/30958541/RtmpyHGeRw/file487cb38356c9f Trying to extract the DSD from: /tmp/th798/30958541/RtmpyHGeRw/file487cb38356c9f get_eurostat_dsd - concepts:freq,milkitem,dairyprod,geo,OBS_FLAG,CONF_STATUS extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="FREQ"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="FREQ"]/s:Code/c:Name[@xml:lang="de"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="MILKITEM"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="MILKITEM"]/s:Code/c:Name[@xml:lang="de"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="DAIRYPROD"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="DAIRYPROD"]/s:Code/c:Name[@xml:lang="de"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="GEO"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="GEO"]/s:Code/c:Name[@xml:lang="de"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="OBS_FLAG"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="OBS_FLAG"]/s:Code/c:Name[@xml:lang="de"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="CONF_STATUS"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="CONF_STATUS"]/s:Code/c:Name[@xml:lang="de"] get_eurostat_dsd - DSD NULL:FALSE get_eurostat_dsd - Trying to download the CC from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/agr_r_milkpr trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/agr_r_milkpr' downloaded 15 KB get_eurostat_dsd - Trying to extract the CC from: /tmp/th798/30958541/RtmpyHGeRw/file487cb2a1c88f2 character number of nodes: 5 number of cores: 2 get_eurostat_dsd - The DSD of the agr_r_milkpr dataset was cached in memory ('agr_r_milkpr.de.dsd' in '.restatapi_env'). create_filter_table - filters class: character; size: 2; filters:BE$Ungarn get_eurostat_data - date_filter: 2007-06< create_filter_table - filters class: character; size: 1; filters:2007-06< create_filter_table - filters: 2007-06<; is numeric: FALSE; call parents: 7 create_filter_table - length df: 1 content df: 2007-06< create_filter_table - 2007-06< date filter length: 1, nchar date_filter: 8 get_eurostat_data - date_filter: 2007-06< nrow dft: 1 ...BE+HU-?startPeriod=2007-06-01 https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...BE+HU/?startPeriod=2007-06-01 trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...BE+HU/?startPeriod=2007-06-01' Content type 'application/vnd.sdmx.genericdata+xml;version=2.1' length 3959 bytes ================================================== downloaded 3959 bytes get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 2 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:34; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS get_eurostat_data - processed restat - nrow:34; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: ...BE+HU date filter: ?startPeriod=2007-06-01 test_restatapi.R.............. 59 tests 1 fails get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_cache - The 'agr_r_milkpr.en.dsd' was loaded from 'agr_r_milkpr.en.dsd' in '.restatapi_env'. create_filter_table - filters class: character; size: 2; filters:BE$Hungary get_eurostat_data - date_filter: 2007-06< create_filter_table - filters class: character; size: 1; filters:2007-06< create_filter_table - filters: 2007-06<; is numeric: FALSE; call parents: 7 create_filter_table - length df: 1 content df: 2007-06< create_filter_table - 2007-06< date filter length: 1, nchar date_filter: 8 get_eurostat_data - date_filter: 2007-06< nrow dft: 1 ...BE+HU-?startPeriod=2007-06-01 https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...BE+HU/?startPeriod=2007-06-01 trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...BE+HU/?startPeriod=2007-06-01' Content type 'application/vnd.sdmx.genericdata+xml;version=2.1' length 3959 bytes ================================================== downloaded 3959 bytes get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 2 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:34; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS get_eurostat_data - processed restat - nrow:34; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: ...BE+HU date filter: ?startPeriod=2007-06-01 test_restatapi.R.............. 59 tests 1 fails test_restatapi.R.............. 60 tests 1 fails clean_restatapi_cache - All objects (outside of 'cfg', 'rav', 'cc' and 'dmethod') are removed from '.restatapi_env'. clean_restatapi_cache - Deleted all .rds files from /tmp/th798/30958541/RtmpyHGeRw test_restatapi.R.............. 60 tests 1 fails There are skipped tests:2-7,8,9,14-17,18,22-29,33-34,44,49-50 test_restatapi.R.............. 60 tests 1 fails Skipped tests: 2-7,8,9,14-17,18,22-29,33-34,44,49-50 config version: 2 test_restatapi.R.............. 60 tests 1 fails test_restatapi.R.............. 60 tests 1 fails 9.7s ----- FAILED[data]: test_restatapi.R<169--169> call| expect_true(is.null(dt8)) diff| Expected TRUE, got FALSE Error: 1 out of 60 tests failed Execution halted * checking PDF version of manual ... OK * DONE Status: 1 ERROR checking msg 1: for file 'restatapi/DESCRIPTION' OK 2: package namespace information OK 3: package dependencies OK 4: if this is a source package OK 5: if there is a namespace OK 6: for executable files OK 7: for hidden files and directories OK 8: for portable file names OK 9: for sufficient/correct file permissions OK 10: whether package 'restatapi' can be installed OK 11: package directory OK 12: DESCRIPTION meta-information OK 13: top-level files OK 14: for left-over files OK 15: index information OK 16: package subdirectories OK 17: code files for non-ASCII characters OK 18: R files for syntax errors OK 19: whether the package can be loaded OK 20: whether the package can be loaded with stated dependencies OK 21: whether the package can be unloaded cleanly OK 22: whether the namespace can be loaded with stated dependencies OK 23: whether the namespace can be unloaded cleanly OK 24: loading without being on the library search path OK 25: whether startup messages can be suppressed OK 26: dependencies in R code OK 27: S3 generic/method consistency OK 28: replacement functions OK 29: foreign function calls OK 30: R code for possible problems OK 31: Rd files OK 32: Rd metadata OK 33: Rd cross-references OK 34: for missing documentation entries OK 35: for code/documentation mismatches OK 36: Rd \\usage sections OK 37: Rd contents OK 38: for unstated dependencies in examples OK 39: examples OK 40: for unstated dependencies in 'tests' OK 41: tests ERROR 42: PDF version of manual OK checking msg checking msg 1: tests ERROR Bisecting: 46 revisions left to test after this (roughly 6 steps) [806ef720cb52e836e68561dd90e1c0112ca8b3ad] Clarify fread header detection with keepLeadingZeros (#5405) (#7809) running '/home/th798/R/R-devel/bin/Rscript' '/home/th798/genomic-ml/data.table-revdeps/install_dt_then_check_dep.R' 'tests' 'ERROR' '/projects/genomic-ml/CRAN/src/contrib/restatapi_0.25.0.tar.gz' '1.18.4' checking "tests" expected "ERROR" rev_dep_tar_gz "/projects/genomic-ml/CRAN/src/contrib/restatapi_0.25.0.tar.gz" dt_release_version "1.18.4" zlib 1.2.13 is available ok * checking if OpenMP works with CFLAGS='' LIBS=''... no * checking if OpenMP works with CFLAGS='$(SHLIB_OPENMP_CFLAGS)' LIBS='$(SHLIB_OPENMP_CFLAGS)'... yes /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c assign.c -o assign.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c coalesce.c -o coalesce.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c deleterows.c -o deleterows.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c dogroups.c -o dogroups.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fmelt.c -o fmelt.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fread.c -o fread.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c freadR.c -o freadR.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c froll.c -o froll.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c frolladaptive.c -o frolladaptive.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c frollapply.c -o frollapply.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c nafill.c -o nafill.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c rbindlist.c -o rbindlist.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c reorder.c -o reorder.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c subset.c -o subset.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c transpose.c -o transpose.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c utils.c -o utils.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c wrappers.c -o wrappers.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o data.table.so assign.o between.o bmerge.o chmatch.o cj.o coalesce.o deleterows.o dogroups.o fastmean.o fcast.o fifelse.o fmelt.o forder.o frank.o fread.o freadR.o froll.o frollR.o frolladaptive.o frollapply.o fsort.o fwrite.o fwriteR.o gsumm.o hash.o idatetime.o ijoin.o init.o inrange.o mergelist.o nafill.o negate.o nqrecreateindices.o openmp-utils.o programming.o quickselect.o rbindlist.o reorder.o shellsort.o shift.o snprintf.o subset.o transpose.o types.o uniqlist.o utils.o vecseq.o wrappers.o -fvisibility=hidden -fopenmp -L/home/th798/.conda/envs/emacs1/lib -lz PKG_CFLAGS = -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include PKG_LIBS = -fvisibility=hidden -fopenmp -L/home/th798/.conda/envs/emacs1/lib -lz * using log directory '/tmp/th798/30958541/R-devel/1314/data.table.git/restatapi.Rcheck' * using R Under development (unstable) (2026-08-15 r90413) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Spack GCC) 12.2.0 GNU Fortran (Spack GCC) 12.2.0 * running under: Red Hat Enterprise Linux 8.10 (Ootpa) * using session charset: ASCII * current time: 2026-08-16 11:13:03 UTC * checking for file 'restatapi/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'restatapi' version '0.25.0' * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package 'restatapi' can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking code files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking loading without being on the library search path ... OK * checking whether startup messages can be suppressed ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking examples ... OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... Running 'tinytest.R' OK * checking PDF version of manual ... OK * DONE Status: OK checking msg 1: for file 'restatapi/DESCRIPTION' OK 2: package namespace information OK 3: package dependencies OK 4: if this is a source package OK 5: if there is a namespace OK 6: for executable files OK 7: for hidden files and directories OK 8: for portable file names OK 9: for sufficient/correct file permissions OK 10: whether package 'restatapi' can be installed OK 11: package directory OK 12: DESCRIPTION meta-information OK 13: top-level files OK 14: for left-over files OK 15: index information OK 16: package subdirectories OK 17: code files for non-ASCII characters OK 18: R files for syntax errors OK 19: whether the package can be loaded OK 20: whether the package can be loaded with stated dependencies OK 21: whether the package can be unloaded cleanly OK 22: whether the namespace can be loaded with stated dependencies OK 23: whether the namespace can be unloaded cleanly OK 24: loading without being on the library search path OK 25: whether startup messages can be suppressed OK 26: dependencies in R code OK 27: S3 generic/method consistency OK 28: replacement functions OK 29: foreign function calls OK 30: R code for possible problems OK 31: Rd files OK 32: Rd metadata OK 33: Rd cross-references OK 34: for missing documentation entries OK 35: for code/documentation mismatches OK 36: Rd \\usage sections OK 37: Rd contents OK 38: for unstated dependencies in examples OK 39: examples OK 40: for unstated dependencies in 'tests' OK 41: tests OK 42: PDF version of manual OK checking msg checking msg 1: tests OK Bisecting: 22 revisions left to test after this (roughly 5 steps) [26bb18e163a2de29cf75ed430175bd9abf12e7ad] Don't access rows of empty table (#7750) running '/home/th798/R/R-devel/bin/Rscript' '/home/th798/genomic-ml/data.table-revdeps/install_dt_then_check_dep.R' 'tests' 'ERROR' '/projects/genomic-ml/CRAN/src/contrib/restatapi_0.25.0.tar.gz' '1.18.4' checking "tests" expected "ERROR" rev_dep_tar_gz "/projects/genomic-ml/CRAN/src/contrib/restatapi_0.25.0.tar.gz" dt_release_version "1.18.4" zlib 1.2.13 is available ok * checking if OpenMP works with CFLAGS='' LIBS=''... no * checking if OpenMP works with CFLAGS='$(SHLIB_OPENMP_CFLAGS)' LIBS='$(SHLIB_OPENMP_CFLAGS)'... yes /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c assign.c -o assign.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c coalesce.c -o coalesce.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c dogroups.c -o dogroups.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fmelt.c -o fmelt.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c freadR.c -o freadR.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c frollapply.c -o frollapply.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c nafill.c -o nafill.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c rbindlist.c -o rbindlist.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c reorder.c -o reorder.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c subset.c -o subset.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c transpose.c -o transpose.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c utils.c -o utils.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c wrappers.c -o wrappers.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o data.table.so assign.o between.o bmerge.o chmatch.o cj.o coalesce.o dogroups.o fastmean.o fcast.o fifelse.o fmelt.o forder.o frank.o fread.o freadR.o froll.o frollR.o frolladaptive.o frollapply.o fsort.o fwrite.o fwriteR.o gsumm.o hash.o idatetime.o ijoin.o init.o inrange.o mergelist.o nafill.o negate.o nqrecreateindices.o openmp-utils.o programming.o quickselect.o rbindlist.o reorder.o shellsort.o shift.o snprintf.o subset.o transpose.o types.o uniqlist.o utils.o vecseq.o wrappers.o -fvisibility=hidden -fopenmp -L/home/th798/.conda/envs/emacs1/lib -lz PKG_CFLAGS = -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include PKG_LIBS = -fvisibility=hidden -fopenmp -L/home/th798/.conda/envs/emacs1/lib -lz if [ "data.table.so" != "data_table.so" ]; then mv data.table.so data_table.so; fi if [ "" != "Windows_NT" ] && [ `uname -s` = 'Darwin' ]; then install_name_tool -id data_table.so data_table.so; fi * using log directory '/tmp/th798/30958541/R-devel/1314/data.table.git/restatapi.Rcheck' * using R Under development (unstable) (2026-08-15 r90413) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Spack GCC) 12.2.0 GNU Fortran (Spack GCC) 12.2.0 * running under: Red Hat Enterprise Linux 8.10 (Ootpa) * using session charset: ASCII * current time: 2026-08-16 11:17:27 UTC * checking for file 'restatapi/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'restatapi' version '0.25.0' * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package 'restatapi' can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking code files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking loading without being on the library search path ... OK * checking whether startup messages can be suppressed ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking examples ... OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... Running 'tinytest.R' ERROR Running the tests in 'tests/tinytest.R' failed. Complete output: > if ( requireNamespace("tinytest", quietly=TRUE) ){ + home <- length(unclass(packageVersion("restatapi"))[[1]]) == 4 + tinytest::test_package("restatapi", at_home = home) + } restatapi: - version 0.25.0 - config file with the API version 2 loaded from GitHub (the 'current' API version number is 2). - 4 from the 64 cores are used for parallel computing, can be changed with 'options(restatapi_cores=...)' - 'auto' method will be used for file download, can be changed with 'options(restatapi_dmethod=...)' - the Table of contents (TOC) was not pre-loaded into the deafult cache ('.restatapi_env'). test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests clean_restatapi_cache - All objects (outside of 'cfg', 'rav', 'cc' and 'dmethod') are removed from '.restatapi_env'. test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml get_eurostat_toc - Warning by the download of the xml version of the TOC file: URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached readBin(3, "raw", 65536) get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. test_restatapi.R.............. 0 tests get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=en trying URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=en' downloaded 1.9 MB get_eurostat_toc - The TOC was cached in memory ('toc.txt.en' in '.restatapi_env'). test_restatapi.R.............. 0 tests get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml get_eurostat_toc - Warning by the download of the xml version of the TOC file: URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached readBin(3, "raw", 65536) get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. test_restatapi.R.............. 0 tests test_restatapi.R.............. 1 tests OK test_restatapi.R.............. 1 tests OK get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml get_eurostat_toc - Warning by the download of the xml version of the TOC file: URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached readBin(3, "raw", 65536) get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. test_restatapi.R.............. 1 tests OK get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml get_eurostat_toc - Warning by the download of the xml version of the TOC file: URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached readBin(3, "raw", 65536) get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. test_restatapi.R.............. 1 tests OK get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml get_eurostat_toc - Warning by the download of the xml version of the TOC file: URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached readBin(3, "raw", 65536) get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. test_restatapi.R.............. 1 tests OK test_restatapi.R.............. 1 tests OK test_restatapi.R.............. 1 tests OK trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/text?references=children' test_restatapi.R.............. 2 tests OK get_eurostat_dsd - API version:2 get_eurostat_dsd - Trying to download the DSD from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/NAMA_10_GDP?references=children trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/NAMA_10_GDP?references=children' downloaded 3.4 MB get_eurostat_dsd - class(temp): character - is.na(temp): FALSE - file.size(temp): 3591544 - temp: /tmp/th798/30958541/RtmpRjptFx/filea7163160d5f87 Trying to extract the DSD from: /tmp/th798/30958541/RtmpRjptFx/filea7163160d5f87 get_eurostat_dsd - concepts:freq,unit,na_item,geo,OBS_FLAG,CONF_STATUS extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="UNIT"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="UNIT"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="FREQ"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="FREQ"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="GEO"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="GEO"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="NA_ITEM"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="NA_ITEM"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="OBS_FLAG"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="OBS_FLAG"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="CONF_STATUS"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="CONF_STATUS"]/s:Code/c:Name[@xml:lang="en"] get_eurostat_dsd - DSD NULL:FALSE get_eurostat_dsd - Trying to download the CC from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/NAMA_10_GDP trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/NAMA_10_GDP' Content type 'application/vnd.sdmx.structure+xml;version=2.1' length 5597 bytes ================================================== downloaded 5597 bytes get_eurostat_dsd - Trying to extract the CC from: /tmp/th798/30958541/RtmpRjptFx/filea7163513754aa character number of nodes: 5 number of cores: 2 get_eurostat_dsd - The DSD of the NAMA_10_GDP dataset was cached in memory ('NAMA_10_GDP.en.dsd' in '.restatapi_env'). test_restatapi.R.............. 2 tests OK test_restatapi.R.............. 5 tests OK test_restatapi.R.............. 5 tests OK test_restatapi.R.............. 5 tests OK test_restatapi.R.............. 5 tests OK get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: htec_cis3 get_eurostat_data - select_freq: get_eurostat_data - Trying to get from cache: b_htec_cis3-2026.08.16-1-1 get_eurostat_bulk - API version:2 get_eurostat_bulk - class of id, cache, update_cache, cache_dir, compress_file, stringsAsFactors, keep_flags, check_toc, melt, verbose: character - logical -logical - NULL - logical - logical - logical - logical - logical - logical get_eurostat_raw - API version:2 get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/htec_cis3?format=TSV&compressed=true get_eurostat_raw - class(raw): data.tabledata.frame get_eurostat_raw - caching in raw: FALSE get_eurostat_raw - local filter: FALSE get_eurostat_raw - called from: restatapi::get_eurostat_rawidtxtcacheupdate_cachecache_dircompress_filestringsAsFactorskeep_flagscheck_tocTRUEverbose get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE get_eurostat_data - The data was downloaded with bulk download. get_eurostat_data - bulk restat - nrow:1006; ncol:7; colnames:indic_in/nace_r1/unit/geo/time/values/flags get_eurostat_data - cflags:TRUE get_eurostat_data - restat - nrow:1006; ncol:7; colnames:indic_in/nace_r1/unit/geo/time/values/flags get_eurostat_data - processed restat - nrow:1006; ncol:7; colnames:indic_in/nace_r1/unit/geo/time/values/flags get_eurostat_data - The data was cached in memory ('b_htec_cis3-2026.08.16-1-1' in '.restatapi_env'). get_eurostat_data - restat NULL?:FALSE id: htec_cis3 filters: date filter: test_restatapi.R.............. 5 tests OK test_restatapi.R.............. 5 tests OK get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: htec_cis3 get_eurostat_data - select_freq: get_eurostat_data - Trying to get from cache: b_htec_cis3-2026.08.16-0-0 get_eurostat_cache - The 'b_htec_cis3-2026.08.16-0-0' was loaded from 'b_htec_cis3-2026.08.16-1-1' in '.restatapi_env'. get_eurostat_data - The data was loaded from cache. get_eurostat_data - cached restat - nrow:1006; ncol:7; colnames:indic_in/nace_r1/unit/geo/time/values/flags get_eurostat_data - restat - nrow:1006; ncol:7; colnames:indic_in/nace_r1/unit/geo/time/values/flags get_eurostat_data - processed restat - nrow:1006; ncol:6; colnames:indic_in/nace_r1/unit/geo/time/values get_eurostat_data - The data was cached in memory ('b_htec_cis3-2026.08.16-0-0' in '.restatapi_env'). get_eurostat_data - restat NULL?:FALSE id: htec_cis3 filters: date filter: test_restatapi.R.............. 5 tests OK test_restatapi.R.............. 5 tests OK test_restatapi.R.............. 8 tests OK test_restatapi.R.............. 8 tests OK get_eurostat_raw - API version:2 get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr?format=sdmx_2.1_structured&compressed=true get_eurostat_raw - file format: gz get_compressed_sdmx - url:https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr?format=sdmx_2.1_structured&compressed=true get_compressed_sdmx - format:gz get_compressed_sdmx - xml NULL:FALSE get_eurostat_raw - class(xml_leafs): xml_nodeset get_eurostat_raw - number of nodes: 583 get_eurostat_raw - number of cores: 2 get_eurostat_raw - caching in raw: TRUE get_eurostat_raw - local filter: FALSE get_eurostat_raw - called from: get_eurostat_rawtestid4xmlTRUETRUE get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE get_eurostat_raw - The raw data was cached in memory ('r_agr_r_milkpr-2026.08.16-1' in '.restatapi_env'). test_restatapi.R.............. 8 tests OK get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_data - Trying to get from cache: b_agr_r_milkpr-2026.08.16-1-0 get_eurostat_cache - The 'b_agr_r_milkpr-2026.08.16-1-0' was loaded from 'r_agr_r_milkpr-2026.08.16-1' in '.restatapi_env'. get_eurostat_data - The data was loaded from cache. get_eurostat_data - cached restat - nrow:11870; ncol:7; colnames:geo/milkitem/freq/dairyprod/TIME_PERIOD/OBS_VALUE/OBS_FLAG get_eurostat_data - restat - nrow:11870; ncol:7; colnames:geo/milkitem/freq/dairyprod/TIME_PERIOD/OBS_VALUE/OBS_FLAG get_eurostat_data - processed restat - nrow:11599; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - The data was cached in memory ('b_agr_r_milkpr-2026.08.16-1-0' in '.restatapi_env'). get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: date filter: test_restatapi.R.............. 8 tests OK get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_data - date_filter: 2008 create_filter_table - filters class: numeric; size: 1; filters:2008 create_filter_table - filters: 2008; is numeric: TRUE; call parents: 7 create_filter_table - length df: 1 content df: 2008 create_filter_table - 2008 date filter length: 1, nchar date_filter: 4 get_eurostat_data - date_filter: 2008 nrow dft: 1 -?startPeriod=2008-01-01&endPeriod=2008-12-31 https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2008-01-01&endPeriod=2008-12-31 trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2008-01-01&endPeriod=2008-12-31' downloaded 106 KB get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 410 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:410; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS get_eurostat_data - processed restat - nrow:390; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: date filter: ?startPeriod=2008-01-01&endPeriod=2008-12-31 test_restatapi.R.............. 8 tests OK test_restatapi.R.............. 9 tests OK test_restatapi.R.............. 10 tests OK get_eurostat_raw - API version:2 get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/irt_h_eurcoe_d?format=TSV&compressed=true get_eurostat_raw - class(raw): data.tabledata.frame get_eurostat_raw - caching in raw: TRUE get_eurostat_raw - local filter: FALSE get_eurostat_raw - called from: get_eurostat_rawtestid5TRUE get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE get_eurostat_raw - The raw data was cached in memory ('r_irt_h_eurcoe_d-2026.08.16-0' in '.restatapi_env'). test_restatapi.R.............. 10 tests OK get_eurostat_bulk - API version:2 get_eurostat_bulk - class of id, cache, update_cache, cache_dir, compress_file, stringsAsFactors, keep_flags, check_toc, melt, verbose: character - logical -logical - NULL - logical - logical - logical - logical - logical - logical get_eurostat_raw - API version:2 get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/irt_h_eurcoe_d?format=TSV&compressed=true get_eurostat_raw - class(raw): data.tabledata.frame get_eurostat_raw - caching in raw: FALSE get_eurostat_raw - local filter: FALSE get_eurostat_raw - called from: restatapi::get_eurostat_rawidtxtcacheupdate_cachecache_dircompress_filestringsAsFactorskeep_flagscheck_tocTRUEverbose get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE get_eurostat_bulk - The bulk data was cached in memory ('b_irt_h_eurcoe_d-2026.08.16-1-0' in '.restatapi_env'). test_restatapi.R.............. 10 tests OK get_eurostat_raw - API version:2 get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml get_eurostat_toc - Warning by the download of the xml version of the TOC file: URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached readBin(6, "raw", 65536) get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. The TOC is missing. Could not get the download link. test_restatapi.R.............. 10 tests OK get_eurostat_bulk - API version:2 get_eurostat_cache - The 'b_irt_h_eurcoe_d-2026.08.16-1-0' was loaded from 'b_irt_h_eurcoe_d-2026.08.16-1-0' in '.restatapi_env'. get_eurostat_bulk - The bulk data was cached previously in memory ('b_irt_h_eurcoe_d-2026.08.16-1-0' in '.restatapi_env'). It remained unchanged. test_restatapi.R.............. 10 tests OK test_restatapi.R.............. 11 tests OK test_restatapi.R.............. 11 tests OK trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/agr_r_milkpr?references=children' downloaded 2.9 MB trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/agr_r_milkpr' downloaded 15 KB test_restatapi.R.............. 12 tests OK test_restatapi.R.............. 13 tests OK test_restatapi.R.............. 14 tests OK test_restatapi.R.............. 15 tests OK test_restatapi.R.............. 18 tests OK trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children' downloaded 12.7 MB trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/avia_par_me/?startPeriod=2017-03-01&endPeriod=2017-03-31' downloaded 58 KB trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children' downloaded 12.3 MB test_restatapi.R.............. 19 tests OK test_restatapi.R.............. 20 tests 1 fails test_restatapi.R.............. 20 tests 1 fails test_restatapi.R.............. 20 tests 1 fails get_eurostat_cache - The 'agr_r_milkpr.en.dsd' was loaded from 'agr_r_milkpr.en.dsd' in '.restatapi_env'. test_restatapi.R.............. 20 tests 1 fails get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_cache - The 'agr_r_milkpr.en.dsd' was loaded from 'agr_r_milkpr.en.dsd' in '.restatapi_env'. create_filter_table - filters class: character; size: 1; filters:AT ...AT- https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT/ trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT/' Content type 'application/vnd.sdmx.genericdata+xml;version=2.1' length 3279 bytes ================================================== downloaded 3279 bytes get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 1 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:29; ncol:6; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue get_eurostat_data - processed restat - nrow:29; ncol:5; colnames:geo/milkitem/dairyprod/time/values get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: ...AT date filter: get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_cache - The 'agr_r_milkpr.en.dsd' was loaded from 'agr_r_milkpr.en.dsd' in '.restatapi_env'. create_filter_table - filters class: character; size: 1; filters:AT ...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34- https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34/ trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34/' downloaded 31 KB get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 13 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:377; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS get_eurostat_data - processed restat - nrow:377; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: ...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34 date filter: get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_data - date_filter: 2016 create_filter_table - filters class: numeric; size: 1; filters:2016 create_filter_table - filters: 2016; is numeric: TRUE; call parents: 8 create_filter_table - length df: 1 content df: 2016 create_filter_table - 2016 date filter length: 1, nchar date_filter: 4 get_eurostat_data - date_filter: 2016 nrow dft: 1 -?startPeriod=2016-01-01&endPeriod=2016-12-31 https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2016-01-01&endPeriod=2016-12-31 trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2016-01-01&endPeriod=2016-12-31' downloaded 137 KB get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 508 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:508; ncol:6; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue get_eurostat_data - processed restat - nrow:494; ncol:5; colnames:geo/milkitem/dairyprod/time/values get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: date filter: ?startPeriod=2016-01-01&endPeriod=2016-12-31 get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_data - date_filter: 2016 create_filter_table - filters class: character; size: 1; filters:2016 create_filter_table - filters: 2016; is numeric: FALSE; call parents: 8 create_filter_table - length df: 1 content df: 2016 create_filter_table - 2016 date filter length: 1, nchar date_filter: 4 get_eurostat_data - date_filter: 2016 nrow dft: 1 -?startPeriod=2016-01-01&endPeriod=2016-12-31 https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2016-01-01&endPeriod=2016-12-31 trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2016-01-01&endPeriod=2016-12-31' downloaded 137 KB get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 508 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:508; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS get_eurostat_data - processed restat - nrow:494; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: date filter: ?startPeriod=2016-01-01&endPeriod=2016-12-31 get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_cache - The 'agr_r_milkpr.en.dsd' was loaded from 'agr_r_milkpr.en.dsd' in '.restatapi_env'. create_filter_table - filters class: character; size: 1; filters:AT ...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34+EL11+EL3+EL30+EL51+ES51+ES52+HR+HR02+HR03+HR04+HR06+HR01+ITF5+LV+LV0+LV00+HU22+RO4+SK01+NO01+NO03+NO04+NO05+UKD3+UKK1+TR2+TR5+TR63+TR72+TR8+TR83+TRB1+TRC3- https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34+EL11+EL3+EL30+EL51+ES51+ES52+HR+HR02+HR03+HR04+HR06+HR01+ITF5+LV+LV0+LV00+HU22+RO4+SK01+NO01+NO03+NO04+NO05+UKD3+UKK1+TR2+TR5+TR63+TR72+TR8+TR83+TRB1+TRC3/ trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34+EL11+EL3+EL30+EL51+ES51+ES52+HR+HR02+HR03+HR04+HR06+HR01+ITF5+LV+LV0+LV00+HU22+RO4+SK01+NO01+NO03+NO04+NO05+UKD3+UKK1+TR2+TR5+TR63+TR72+TR8+TR83+TRB1+TRC3/' downloaded 83 KB get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 46 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:1004; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS get_eurostat_data - processed restat - nrow:993; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: ...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34+EL11+EL3+EL30+EL51+ES51+ES52+HR+HR02+HR03+HR04+HR06+HR01+ITF5+LV+LV0+LV00+HU22+RO4+SK01+NO01+NO03+NO04+NO05+UKD3+UKK1+TR2+TR5+TR63+TR72+TR8+TR83+TRB1+TRC3 date filter: test_restatapi.R.............. 24 tests 1 fails get_eurostat_dsd - API version:2 get_eurostat_dsd - Trying to download the DSD from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children' downloaded 17.3 MB get_eurostat_dsd - Warning by the download of the DSD file: URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children': Timeout of 60 seconds was reached utils::download.file(dsd_endpoint, temp, dmethod) get_eurostat_dsd - class(temp): character - is.na(temp): FALSE - file.size(temp): 18133346 - temp: /tmp/th798/30958541/RtmpRjptFx/filea71633939b425 Trying to extract the DSD from: /tmp/th798/30958541/RtmpRjptFx/filea71633939b425 get_eurostat_dsd - Error during the extraction of the XML from the downloaded DSD file: StartTag: invalid element name [68] read_xml.character(temp) get_eurostat_dsd - The dsd_xml is NULL. Please check in a browser the url below. If it provides valid response you can try again to download the DSD. https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children test_restatapi.R.............. 24 tests 1 fails test_restatapi.R.............. 24 tests 1 fails test_restatapi.R.............. 24 tests 1 fails test_restatapi.R.............. 24 tests 1 fails test_restatapi.R.............. 26 tests 1 fails test_restatapi.R.............. 27 tests 1 fails test_restatapi.R.............. 27 tests 1 fails test_restatapi.R.............. 28 tests 1 fails test_restatapi.R.............. 30 tests 1 fails test_restatapi.R.............. 31 tests 1 fails test_restatapi.R.............. 35 tests 1 fails test_restatapi.R.............. 37 tests 1 fails test_restatapi.R.............. 39 tests 1 fails test_restatapi.R.............. 40 tests 1 fails test_restatapi.R.............. 41 tests 1 fails test_restatapi.R.............. 42 tests 1 fails test_restatapi.R.............. 43 tests 1 fails test_restatapi.R.............. 44 tests 1 fails test_restatapi.R.............. 45 tests 1 fails test_restatapi.R.............. 46 tests 1 fails test_restatapi.R.............. 47 tests 1 fails test_restatapi.R.............. 48 tests 1 fails test_restatapi.R.............. 49 tests 1 fails test_restatapi.R.............. 50 tests 1 fails test_restatapi.R.............. 51 tests 1 fails test_restatapi.R.............. 52 tests 1 fails test_restatapi.R.............. 53 tests 1 fails get_eurostat_raw - API version:2 get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/tus_00age?format=TSV&compressed=true get_eurostat_raw - class(raw): data.tabledata.frame get_eurostat_raw - caching in raw: TRUE get_eurostat_raw - local filter: FALSE get_eurostat_raw - called from: get_eurostat_rawtestid7 get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE get_eurostat_raw - The raw data was cached in memory ('r_tus_00age-2026.08.16-0' in '.restatapi_env'). test_restatapi.R.............. 53 tests 1 fails get_eurostat_dsd - API version:2 get_eurostat_dsd - Trying to download the DSD from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/tus_00age?references=children trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/tus_00age?references=children' downloaded 3.7 MB get_eurostat_dsd - class(temp): character - is.na(temp): FALSE - file.size(temp): 3901770 - temp: /tmp/th798/30958541/RtmpRjptFx/filea716327026044 Trying to extract the DSD from: /tmp/th798/30958541/RtmpRjptFx/filea716327026044 get_eurostat_dsd - concepts:freq,unit,sex,age,acl00,geo,OBS_FLAG,CONF_STATUS extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="FREQ"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="FREQ"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="UNIT"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="UNIT"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="SEX"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="SEX"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="AGE"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="AGE"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="ACL00"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="ACL00"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="GEO"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="GEO"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="OBS_FLAG"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="OBS_FLAG"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="CONF_STATUS"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="CONF_STATUS"]/s:Code/c:Name[@xml:lang="en"] get_eurostat_dsd - DSD NULL:FALSE get_eurostat_dsd - Trying to download the CC from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/tus_00age trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/tus_00age' Content type 'application/vnd.sdmx.structure+xml;version=2.1' length 3844 bytes ================================================== downloaded 3844 bytes get_eurostat_dsd - Trying to extract the CC from: /tmp/th798/30958541/RtmpRjptFx/filea716325a2ee5d character number of nodes: 7 number of cores: 2 get_eurostat_dsd - The DSD of the tus_00age dataset was cached in memory ('tus_00age.en.dsd' in '.restatapi_env'). test_restatapi.R.............. 53 tests 1 fails create_filter_table - filters class: character; size: 3; filters:TIME_SPHungaryT test_restatapi.R.............. 54 tests 1 fails get_eurostat_raw - API version:2 get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/avia_par_me?format=TSV&compressed=true get_eurostat_raw - class(raw): data.tabledata.frame get_eurostat_raw - caching in raw: TRUE get_eurostat_raw - local filter: FALSE get_eurostat_raw - called from: get_eurostat_rawtestid6 get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE get_eurostat_raw - The raw data was cached in memory ('r_avia_par_me-2026.08.16-0' in '.restatapi_env'). test_restatapi.R.............. 54 tests 1 fails create_filter_table - filters class: character; size: 1; filters:2017:2018 create_filter_table - filters: 2017:2018; is numeric: FALSE; call parents: 6 create_filter_table - length df: 1 content df: 2017:2018 create_filter_table - 2017:2018 date filter length: 1, nchar date_filter: 9 test_restatapi.R.............. 55 tests 1 fails get_eurostat_codelist - API version:2 get_eurostat_codelist - API version:2 get_eurostat_codelist - Trying to download the codelist from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/codelist/ESTAT/SEX trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/codelist/ESTAT/SEX' Content type 'application/vnd.sdmx.structure+xml;version=2.1' length 5941 bytes ================================================== downloaded 5941 bytes Trying to extract the codelist from: /tmp/th798/30958541/RtmpRjptFx/filea71635fe8d14a get_eurostat_codelist - codelist NULL:TRUE test_restatapi.R.............. 55 tests 1 fails test_restatapi.R.............. 57 tests 1 fails 4.18.0-553.124.1.el8_10.x86_64 test_restatapi.R.............. 57 tests 1 fails Are we at home:FALSE test_restatapi.R.............. 57 tests 1 fails test_restatapi.R.............. 57 tests 1 fails get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=fr trying URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=fr' downloaded 2.1 MB get_eurostat_toc - The TOC was cached in memory ('toc.txt.fr' in '.restatapi_env'). test_restatapi.R.............. 57 tests 1 fails get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=de trying URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=de' downloaded 2.0 MB get_eurostat_toc - The TOC was cached in memory ('toc.txt.de' in '.restatapi_env'). test_restatapi.R.............. 57 tests 1 fails test_restatapi.R.............. 58 tests 1 fails get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_dsd - API version:2 get_eurostat_dsd - Trying to download the DSD from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/agr_r_milkpr?references=children trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/agr_r_milkpr?references=children' downloaded 2.9 MB get_eurostat_dsd - class(temp): character - is.na(temp): FALSE - file.size(temp): 3008178 - temp: /tmp/th798/30958541/RtmpRjptFx/filea71636c12fad9 Trying to extract the DSD from: /tmp/th798/30958541/RtmpRjptFx/filea71636c12fad9 get_eurostat_dsd - concepts:freq,milkitem,dairyprod,geo,OBS_FLAG,CONF_STATUS extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="FREQ"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="FREQ"]/s:Code/c:Name[@xml:lang="de"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="MILKITEM"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="MILKITEM"]/s:Code/c:Name[@xml:lang="de"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="DAIRYPROD"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="DAIRYPROD"]/s:Code/c:Name[@xml:lang="de"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="GEO"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="GEO"]/s:Code/c:Name[@xml:lang="de"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="OBS_FLAG"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="OBS_FLAG"]/s:Code/c:Name[@xml:lang="de"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="CONF_STATUS"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="CONF_STATUS"]/s:Code/c:Name[@xml:lang="de"] get_eurostat_dsd - DSD NULL:FALSE get_eurostat_dsd - Trying to download the CC from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/agr_r_milkpr trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/agr_r_milkpr' downloaded 15 KB get_eurostat_dsd - Trying to extract the CC from: /tmp/th798/30958541/RtmpRjptFx/filea71631125deca character number of nodes: 5 number of cores: 2 get_eurostat_dsd - The DSD of the agr_r_milkpr dataset was cached in memory ('agr_r_milkpr.de.dsd' in '.restatapi_env'). create_filter_table - filters class: character; size: 2; filters:BE$Ungarn get_eurostat_data - date_filter: 2007-06< create_filter_table - filters class: character; size: 1; filters:2007-06< create_filter_table - filters: 2007-06<; is numeric: FALSE; call parents: 7 create_filter_table - length df: 1 content df: 2007-06< create_filter_table - 2007-06< date filter length: 1, nchar date_filter: 8 get_eurostat_data - date_filter: 2007-06< nrow dft: 1 ...BE+HU-?startPeriod=2007-06-01 https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...BE+HU/?startPeriod=2007-06-01 trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...BE+HU/?startPeriod=2007-06-01' Content type 'application/vnd.sdmx.genericdata+xml;version=2.1' length 3959 bytes ================================================== downloaded 3959 bytes get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 2 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:34; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS get_eurostat_data - processed restat - nrow:34; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: ...BE+HU date filter: ?startPeriod=2007-06-01 test_restatapi.R.............. 58 tests 1 fails get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_cache - The 'agr_r_milkpr.en.dsd' was loaded from 'agr_r_milkpr.en.dsd' in '.restatapi_env'. create_filter_table - filters class: character; size: 2; filters:BE$Hungary get_eurostat_data - date_filter: 2007-06< create_filter_table - filters class: character; size: 1; filters:2007-06< create_filter_table - filters: 2007-06<; is numeric: FALSE; call parents: 7 create_filter_table - length df: 1 content df: 2007-06< create_filter_table - 2007-06< date filter length: 1, nchar date_filter: 8 get_eurostat_data - date_filter: 2007-06< nrow dft: 1 ...BE+HU-?startPeriod=2007-06-01 https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...BE+HU/?startPeriod=2007-06-01 trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...BE+HU/?startPeriod=2007-06-01' Content type 'application/vnd.sdmx.genericdata+xml;version=2.1' length 3959 bytes ================================================== downloaded 3959 bytes get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 2 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:34; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS get_eurostat_data - processed restat - nrow:34; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: ...BE+HU date filter: ?startPeriod=2007-06-01 test_restatapi.R.............. 58 tests 1 fails test_restatapi.R.............. 59 tests 1 fails clean_restatapi_cache - All objects (outside of 'cfg', 'rav', 'cc' and 'dmethod') are removed from '.restatapi_env'. clean_restatapi_cache - Deleted all .rds files from /tmp/th798/30958541/RtmpRjptFx test_restatapi.R.............. 59 tests 1 fails There are skipped tests:2-7,8,9,14-17,18,22-29,33-34,44,49-50,54 test_restatapi.R.............. 59 tests 1 fails Skipped tests: 2-7,8,9,14-17,18,22-29,33-34,44,49-50,54 config version: 2 test_restatapi.R.............. 59 tests 1 fails test_restatapi.R.............. 59 tests 1 fails 10.7s ----- FAILED[data]: test_restatapi.R<169--169> call| expect_true(is.null(dt8)) diff| Expected TRUE, got FALSE Error: 1 out of 59 tests failed Execution halted * checking PDF version of manual ... OK * DONE Status: 1 ERROR checking msg 1: for file 'restatapi/DESCRIPTION' OK 2: package namespace information OK 3: package dependencies OK 4: if this is a source package OK 5: if there is a namespace OK 6: for executable files OK 7: for hidden files and directories OK 8: for portable file names OK 9: for sufficient/correct file permissions OK 10: whether package 'restatapi' can be installed OK 11: package directory OK 12: DESCRIPTION meta-information OK 13: top-level files OK 14: for left-over files OK 15: index information OK 16: package subdirectories OK 17: code files for non-ASCII characters OK 18: R files for syntax errors OK 19: whether the package can be loaded OK 20: whether the package can be loaded with stated dependencies OK 21: whether the package can be unloaded cleanly OK 22: whether the namespace can be loaded with stated dependencies OK 23: whether the namespace can be unloaded cleanly OK 24: loading without being on the library search path OK 25: whether startup messages can be suppressed OK 26: dependencies in R code OK 27: S3 generic/method consistency OK 28: replacement functions OK 29: foreign function calls OK 30: R code for possible problems OK 31: Rd files OK 32: Rd metadata OK 33: Rd cross-references OK 34: for missing documentation entries OK 35: for code/documentation mismatches OK 36: Rd \\usage sections OK 37: Rd contents OK 38: for unstated dependencies in examples OK 39: examples OK 40: for unstated dependencies in 'tests' OK 41: tests ERROR 42: PDF version of manual OK checking msg checking msg 1: tests ERROR Bisecting: 11 revisions left to test after this (roughly 4 steps) [82380b2e313daf64f7748c3aa9963c472d1b3c4e] Declare variables at point of use in assign.c (#7303) running '/home/th798/R/R-devel/bin/Rscript' '/home/th798/genomic-ml/data.table-revdeps/install_dt_then_check_dep.R' 'tests' 'ERROR' '/projects/genomic-ml/CRAN/src/contrib/restatapi_0.25.0.tar.gz' '1.18.4' checking "tests" expected "ERROR" rev_dep_tar_gz "/projects/genomic-ml/CRAN/src/contrib/restatapi_0.25.0.tar.gz" dt_release_version "1.18.4" zlib 1.2.13 is available ok * checking if OpenMP works with CFLAGS='' LIBS=''... no * checking if OpenMP works with CFLAGS='$(SHLIB_OPENMP_CFLAGS)' LIBS='$(SHLIB_OPENMP_CFLAGS)'... yes /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c assign.c -o assign.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c coalesce.c -o coalesce.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c dogroups.c -o dogroups.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fmelt.c -o fmelt.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c freadR.c -o freadR.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c nafill.c -o nafill.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c reorder.c -o reorder.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c subset.c -o subset.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c transpose.c -o transpose.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c utils.c -o utils.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c wrappers.c -o wrappers.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o data.table.so assign.o between.o bmerge.o chmatch.o cj.o coalesce.o dogroups.o fastmean.o fcast.o fifelse.o fmelt.o forder.o frank.o fread.o freadR.o froll.o frollR.o frolladaptive.o frollapply.o fsort.o fwrite.o fwriteR.o gsumm.o hash.o idatetime.o ijoin.o init.o inrange.o mergelist.o nafill.o negate.o nqrecreateindices.o openmp-utils.o programming.o quickselect.o rbindlist.o reorder.o shellsort.o shift.o snprintf.o subset.o transpose.o types.o uniqlist.o utils.o vecseq.o wrappers.o -fvisibility=hidden -fopenmp -L/home/th798/.conda/envs/emacs1/lib -lz PKG_CFLAGS = -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include PKG_LIBS = -fvisibility=hidden -fopenmp -L/home/th798/.conda/envs/emacs1/lib -lz if [ "data.table.so" != "data_table.so" ]; then mv data.table.so data_table.so; fi if [ "" != "Windows_NT" ] && [ `uname -s` = 'Darwin' ]; then install_name_tool -id data_table.so data_table.so; fi * using log directory '/tmp/th798/30958541/R-devel/1314/data.table.git/restatapi.Rcheck' * using R Under development (unstable) (2026-08-15 r90413) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Spack GCC) 12.2.0 GNU Fortran (Spack GCC) 12.2.0 * running under: Red Hat Enterprise Linux 8.10 (Ootpa) * using session charset: ASCII * current time: 2026-08-16 11:29:23 UTC * checking for file 'restatapi/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'restatapi' version '0.25.0' * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package 'restatapi' can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking code files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking loading without being on the library search path ... OK * checking whether startup messages can be suppressed ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking examples ... OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... Running 'tinytest.R' OK * checking PDF version of manual ... OK * DONE Status: OK checking msg 1: for file 'restatapi/DESCRIPTION' OK 2: package namespace information OK 3: package dependencies OK 4: if this is a source package OK 5: if there is a namespace OK 6: for executable files OK 7: for hidden files and directories OK 8: for portable file names OK 9: for sufficient/correct file permissions OK 10: whether package 'restatapi' can be installed OK 11: package directory OK 12: DESCRIPTION meta-information OK 13: top-level files OK 14: for left-over files OK 15: index information OK 16: package subdirectories OK 17: code files for non-ASCII characters OK 18: R files for syntax errors OK 19: whether the package can be loaded OK 20: whether the package can be loaded with stated dependencies OK 21: whether the package can be unloaded cleanly OK 22: whether the namespace can be loaded with stated dependencies OK 23: whether the namespace can be unloaded cleanly OK 24: loading without being on the library search path OK 25: whether startup messages can be suppressed OK 26: dependencies in R code OK 27: S3 generic/method consistency OK 28: replacement functions OK 29: foreign function calls OK 30: R code for possible problems OK 31: Rd files OK 32: Rd metadata OK 33: Rd cross-references OK 34: for missing documentation entries OK 35: for code/documentation mismatches OK 36: Rd \\usage sections OK 37: Rd contents OK 38: for unstated dependencies in examples OK 39: examples OK 40: for unstated dependencies in 'tests' OK 41: tests OK 42: PDF version of manual OK checking msg checking msg 1: tests OK Bisecting: 5 revisions left to test after this (roughly 3 steps) [043aa6b5f52ddac747c3364ca6de829926037a5f] update documentation to reflect supported types for nafill (#7762) running '/home/th798/R/R-devel/bin/Rscript' '/home/th798/genomic-ml/data.table-revdeps/install_dt_then_check_dep.R' 'tests' 'ERROR' '/projects/genomic-ml/CRAN/src/contrib/restatapi_0.25.0.tar.gz' '1.18.4' checking "tests" expected "ERROR" rev_dep_tar_gz "/projects/genomic-ml/CRAN/src/contrib/restatapi_0.25.0.tar.gz" dt_release_version "1.18.4" zlib 1.2.13 is available ok * checking if OpenMP works with CFLAGS='' LIBS=''... no * checking if OpenMP works with CFLAGS='$(SHLIB_OPENMP_CFLAGS)' LIBS='$(SHLIB_OPENMP_CFLAGS)'... yes /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c assign.c -o assign.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c coalesce.c -o coalesce.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c dogroups.c -o dogroups.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fmelt.c -o fmelt.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c freadR.c -o freadR.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c nafill.c -o nafill.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c reorder.c -o reorder.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c subset.c -o subset.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c transpose.c -o transpose.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c utils.c -o utils.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c wrappers.c -o wrappers.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o data.table.so assign.o between.o bmerge.o chmatch.o cj.o coalesce.o dogroups.o fastmean.o fcast.o fifelse.o fmelt.o forder.o frank.o fread.o freadR.o froll.o frollR.o frolladaptive.o frollapply.o fsort.o fwrite.o fwriteR.o gsumm.o hash.o idatetime.o ijoin.o init.o inrange.o mergelist.o nafill.o negate.o nqrecreateindices.o openmp-utils.o programming.o quickselect.o rbindlist.o reorder.o shellsort.o shift.o snprintf.o subset.o transpose.o types.o uniqlist.o utils.o vecseq.o wrappers.o -fvisibility=hidden -fopenmp -L/home/th798/.conda/envs/emacs1/lib -lz PKG_CFLAGS = -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include PKG_LIBS = -fvisibility=hidden -fopenmp -L/home/th798/.conda/envs/emacs1/lib -lz if [ "data.table.so" != "data_table.so" ]; then mv data.table.so data_table.so; fi if [ "" != "Windows_NT" ] && [ `uname -s` = 'Darwin' ]; then install_name_tool -id data_table.so data_table.so; fi * using log directory '/tmp/th798/30958541/R-devel/1314/data.table.git/restatapi.Rcheck' * using R Under development (unstable) (2026-08-15 r90413) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Spack GCC) 12.2.0 GNU Fortran (Spack GCC) 12.2.0 * running under: Red Hat Enterprise Linux 8.10 (Ootpa) * using session charset: ASCII * current time: 2026-08-16 11:33:56 UTC * checking for file 'restatapi/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'restatapi' version '0.25.0' * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package 'restatapi' can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking code files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking loading without being on the library search path ... OK * checking whether startup messages can be suppressed ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking examples ... OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... Running 'tinytest.R' ERROR Running the tests in 'tests/tinytest.R' failed. Complete output: > if ( requireNamespace("tinytest", quietly=TRUE) ){ + home <- length(unclass(packageVersion("restatapi"))[[1]]) == 4 + tinytest::test_package("restatapi", at_home = home) + } restatapi: - version 0.25.0 - config file with the API version 2 loaded from GitHub (the 'current' API version number is 2). - 4 from the 64 cores are used for parallel computing, can be changed with 'options(restatapi_cores=...)' - 'auto' method will be used for file download, can be changed with 'options(restatapi_dmethod=...)' - the Table of contents (TOC) was not pre-loaded into the deafult cache ('.restatapi_env'). test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests clean_restatapi_cache - All objects (outside of 'cfg', 'rav', 'cc' and 'dmethod') are removed from '.restatapi_env'. test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests test_restatapi.R.............. 0 tests get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml get_eurostat_toc - Warning by the download of the xml version of the TOC file: URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached readBin(3, "raw", 65536) get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. test_restatapi.R.............. 0 tests get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=en trying URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=en' downloaded 1.9 MB get_eurostat_toc - The TOC was cached in memory ('toc.txt.en' in '.restatapi_env'). test_restatapi.R.............. 0 tests get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml get_eurostat_toc - Warning by the download of the xml version of the TOC file: URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached readBin(3, "raw", 65536) get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. test_restatapi.R.............. 0 tests test_restatapi.R.............. 1 tests OK test_restatapi.R.............. 1 tests OK get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml get_eurostat_toc - Warning by the download of the xml version of the TOC file: URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached readBin(3, "raw", 65536) get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. test_restatapi.R.............. 1 tests OK get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml get_eurostat_toc - Warning by the download of the xml version of the TOC file: URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached readBin(3, "raw", 65536) get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. test_restatapi.R.............. 1 tests OK get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml get_eurostat_toc - Warning by the download of the xml version of the TOC file: URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached readBin(3, "raw", 65536) get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. test_restatapi.R.............. 1 tests OK test_restatapi.R.............. 1 tests OK test_restatapi.R.............. 1 tests OK trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/text?references=children' test_restatapi.R.............. 2 tests OK get_eurostat_dsd - API version:2 get_eurostat_dsd - Trying to download the DSD from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/NAMA_10_GDP?references=children trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/NAMA_10_GDP?references=children' downloaded 3.4 MB get_eurostat_dsd - class(temp): character - is.na(temp): FALSE - file.size(temp): 3591544 - temp: /tmp/th798/30958541/RtmpdgPFvG/file10ffdc2a4117b Trying to extract the DSD from: /tmp/th798/30958541/RtmpdgPFvG/file10ffdc2a4117b get_eurostat_dsd - concepts:freq,unit,na_item,geo,OBS_FLAG,CONF_STATUS extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="FREQ"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="FREQ"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="UNIT"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="UNIT"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="NA_ITEM"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="NA_ITEM"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="GEO"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="GEO"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="OBS_FLAG"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="OBS_FLAG"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="CONF_STATUS"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="CONF_STATUS"]/s:Code/c:Name[@xml:lang="en"] get_eurostat_dsd - DSD NULL:FALSE get_eurostat_dsd - Trying to download the CC from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/NAMA_10_GDP trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/NAMA_10_GDP' Content type 'application/vnd.sdmx.structure+xml;version=2.1' length 5597 bytes ================================================== downloaded 5597 bytes get_eurostat_dsd - Trying to extract the CC from: /tmp/th798/30958541/RtmpdgPFvG/file10ffdc105f8121 character number of nodes: 5 number of cores: 2 get_eurostat_dsd - The DSD of the NAMA_10_GDP dataset was cached in memory ('NAMA_10_GDP.en.dsd' in '.restatapi_env'). test_restatapi.R.............. 2 tests OK test_restatapi.R.............. 5 tests OK test_restatapi.R.............. 5 tests OK test_restatapi.R.............. 5 tests OK test_restatapi.R.............. 5 tests OK get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: htec_cis3 get_eurostat_data - select_freq: get_eurostat_data - Trying to get from cache: b_htec_cis3-2026.08.16-1-1 get_eurostat_bulk - API version:2 get_eurostat_bulk - class of id, cache, update_cache, cache_dir, compress_file, stringsAsFactors, keep_flags, check_toc, melt, verbose: character - logical -logical - NULL - logical - logical - logical - logical - logical - logical get_eurostat_raw - API version:2 get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/htec_cis3?format=TSV&compressed=true get_eurostat_raw - class(raw): data.tabledata.frame get_eurostat_raw - caching in raw: FALSE get_eurostat_raw - local filter: FALSE get_eurostat_raw - called from: restatapi::get_eurostat_rawidtxtcacheupdate_cachecache_dircompress_filestringsAsFactorskeep_flagscheck_tocTRUEverbose get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE get_eurostat_data - The data was downloaded with bulk download. get_eurostat_data - bulk restat - nrow:1006; ncol:7; colnames:indic_in/nace_r1/unit/geo/time/values/flags get_eurostat_data - cflags:TRUE get_eurostat_data - restat - nrow:1006; ncol:7; colnames:indic_in/nace_r1/unit/geo/time/values/flags get_eurostat_data - processed restat - nrow:1006; ncol:7; colnames:indic_in/nace_r1/unit/geo/time/values/flags get_eurostat_data - The data was cached in memory ('b_htec_cis3-2026.08.16-1-1' in '.restatapi_env'). get_eurostat_data - restat NULL?:FALSE id: htec_cis3 filters: date filter: test_restatapi.R.............. 5 tests OK test_restatapi.R.............. 5 tests OK get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: htec_cis3 get_eurostat_data - select_freq: get_eurostat_data - Trying to get from cache: b_htec_cis3-2026.08.16-0-0 get_eurostat_cache - The 'b_htec_cis3-2026.08.16-0-0' was loaded from 'b_htec_cis3-2026.08.16-1-1' in '.restatapi_env'. get_eurostat_data - The data was loaded from cache. get_eurostat_data - cached restat - nrow:1006; ncol:7; colnames:indic_in/nace_r1/unit/geo/time/values/flags get_eurostat_data - restat - nrow:1006; ncol:7; colnames:indic_in/nace_r1/unit/geo/time/values/flags get_eurostat_data - processed restat - nrow:1006; ncol:6; colnames:indic_in/nace_r1/unit/geo/time/values get_eurostat_data - The data was cached in memory ('b_htec_cis3-2026.08.16-0-0' in '.restatapi_env'). get_eurostat_data - restat NULL?:FALSE id: htec_cis3 filters: date filter: test_restatapi.R.............. 5 tests OK test_restatapi.R.............. 5 tests OK test_restatapi.R.............. 8 tests OK test_restatapi.R.............. 8 tests OK get_eurostat_raw - API version:2 get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr?format=sdmx_2.1_structured&compressed=true get_eurostat_raw - file format: gz get_compressed_sdmx - url:https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr?format=sdmx_2.1_structured&compressed=true get_compressed_sdmx - format:gz get_compressed_sdmx - xml NULL:FALSE get_eurostat_raw - class(xml_leafs): xml_nodeset get_eurostat_raw - number of nodes: 583 get_eurostat_raw - number of cores: 2 get_eurostat_raw - caching in raw: TRUE get_eurostat_raw - local filter: FALSE get_eurostat_raw - called from: get_eurostat_rawtestid4xmlTRUETRUE get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE get_eurostat_raw - The raw data was cached in memory ('r_agr_r_milkpr-2026.08.16-1' in '.restatapi_env'). test_restatapi.R.............. 8 tests OK get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_data - Trying to get from cache: b_agr_r_milkpr-2026.08.16-1-0 get_eurostat_cache - The 'b_agr_r_milkpr-2026.08.16-1-0' was loaded from 'r_agr_r_milkpr-2026.08.16-1' in '.restatapi_env'. get_eurostat_data - The data was loaded from cache. get_eurostat_data - cached restat - nrow:11870; ncol:7; colnames:geo/milkitem/freq/dairyprod/TIME_PERIOD/OBS_VALUE/OBS_FLAG get_eurostat_data - restat - nrow:11870; ncol:7; colnames:geo/milkitem/freq/dairyprod/TIME_PERIOD/OBS_VALUE/OBS_FLAG get_eurostat_data - processed restat - nrow:11599; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - The data was cached in memory ('b_agr_r_milkpr-2026.08.16-1-0' in '.restatapi_env'). get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: date filter: test_restatapi.R.............. 8 tests OK get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_data - date_filter: 2008 create_filter_table - filters class: numeric; size: 1; filters:2008 create_filter_table - filters: 2008; is numeric: TRUE; call parents: 7 create_filter_table - length df: 1 content df: 2008 create_filter_table - 2008 date filter length: 1, nchar date_filter: 4 get_eurostat_data - date_filter: 2008 nrow dft: 1 -?startPeriod=2008-01-01&endPeriod=2008-12-31 https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2008-01-01&endPeriod=2008-12-31 trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2008-01-01&endPeriod=2008-12-31' downloaded 106 KB get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 410 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:410; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS get_eurostat_data - processed restat - nrow:390; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: date filter: ?startPeriod=2008-01-01&endPeriod=2008-12-31 test_restatapi.R.............. 8 tests OK test_restatapi.R.............. 9 tests OK test_restatapi.R.............. 10 tests OK get_eurostat_raw - API version:2 get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/irt_h_eurcoe_d?format=TSV&compressed=true get_eurostat_raw - class(raw): data.tabledata.frame get_eurostat_raw - caching in raw: TRUE get_eurostat_raw - local filter: FALSE get_eurostat_raw - called from: get_eurostat_rawtestid5TRUE get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE get_eurostat_raw - The raw data was cached in memory ('r_irt_h_eurcoe_d-2026.08.16-0' in '.restatapi_env'). test_restatapi.R.............. 10 tests OK get_eurostat_bulk - API version:2 get_eurostat_bulk - class of id, cache, update_cache, cache_dir, compress_file, stringsAsFactors, keep_flags, check_toc, melt, verbose: character - logical -logical - NULL - logical - logical - logical - logical - logical - logical get_eurostat_raw - API version:2 get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/irt_h_eurcoe_d?format=TSV&compressed=true get_eurostat_raw - class(raw): data.tabledata.frame get_eurostat_raw - caching in raw: FALSE get_eurostat_raw - local filter: FALSE get_eurostat_raw - called from: restatapi::get_eurostat_rawidtxtcacheupdate_cachecache_dircompress_filestringsAsFactorskeep_flagscheck_tocTRUEverbose get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE get_eurostat_bulk - The bulk data was cached in memory ('b_irt_h_eurcoe_d-2026.08.16-1-0' in '.restatapi_env'). test_restatapi.R.............. 10 tests OK get_eurostat_raw - API version:2 get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml get_eurostat_toc - Warning by the download of the xml version of the TOC file: URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/xml': Timeout of 60 seconds was reached readBin(6, "raw", 65536) get_eurostat_toc - The TOC is empty. Please check the download link form the line above in a web browser. The TOC is missing. Could not get the download link. test_restatapi.R.............. 10 tests OK get_eurostat_bulk - API version:2 get_eurostat_cache - The 'b_irt_h_eurcoe_d-2026.08.16-1-0' was loaded from 'b_irt_h_eurcoe_d-2026.08.16-1-0' in '.restatapi_env'. get_eurostat_bulk - The bulk data was cached previously in memory ('b_irt_h_eurcoe_d-2026.08.16-1-0' in '.restatapi_env'). It remained unchanged. test_restatapi.R.............. 10 tests OK test_restatapi.R.............. 11 tests OK test_restatapi.R.............. 11 tests OK trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/agr_r_milkpr?references=children' downloaded 2.9 MB trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/agr_r_milkpr' downloaded 15 KB test_restatapi.R.............. 12 tests OK test_restatapi.R.............. 13 tests OK test_restatapi.R.............. 14 tests OK test_restatapi.R.............. 15 tests OK test_restatapi.R.............. 18 tests OK trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children' downloaded 11.2 MB trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/avia_par_me/?startPeriod=2017-03-01&endPeriod=2017-03-31' downloaded 58 KB trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children' downloaded 15.7 MB test_restatapi.R.............. 19 tests OK test_restatapi.R.............. 20 tests 1 fails test_restatapi.R.............. 20 tests 1 fails test_restatapi.R.............. 20 tests 1 fails get_eurostat_cache - The 'agr_r_milkpr.en.dsd' was loaded from 'agr_r_milkpr.en.dsd' in '.restatapi_env'. test_restatapi.R.............. 20 tests 1 fails get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_cache - The 'agr_r_milkpr.en.dsd' was loaded from 'agr_r_milkpr.en.dsd' in '.restatapi_env'. create_filter_table - filters class: character; size: 1; filters:AT ...AT- https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT/ trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT/' Content type 'application/vnd.sdmx.genericdata+xml;version=2.1' length 3279 bytes ================================================== downloaded 3279 bytes get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 1 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:29; ncol:6; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue get_eurostat_data - processed restat - nrow:29; ncol:5; colnames:geo/milkitem/dairyprod/time/values get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: ...AT date filter: get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_cache - The 'agr_r_milkpr.en.dsd' was loaded from 'agr_r_milkpr.en.dsd' in '.restatapi_env'. create_filter_table - filters class: character; size: 1; filters:AT ...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34- https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34/ trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34/' downloaded 31 KB get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 13 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:377; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS get_eurostat_data - processed restat - nrow:377; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: ...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34 date filter: get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_data - date_filter: 2016 create_filter_table - filters class: numeric; size: 1; filters:2016 create_filter_table - filters: 2016; is numeric: TRUE; call parents: 8 create_filter_table - length df: 1 content df: 2016 create_filter_table - 2016 date filter length: 1, nchar date_filter: 4 get_eurostat_data - date_filter: 2016 nrow dft: 1 -?startPeriod=2016-01-01&endPeriod=2016-12-31 https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2016-01-01&endPeriod=2016-12-31 trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2016-01-01&endPeriod=2016-12-31' downloaded 137 KB get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 508 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:508; ncol:6; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue get_eurostat_data - processed restat - nrow:494; ncol:5; colnames:geo/milkitem/dairyprod/time/values get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: date filter: ?startPeriod=2016-01-01&endPeriod=2016-12-31 get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_data - date_filter: 2016 create_filter_table - filters class: character; size: 1; filters:2016 create_filter_table - filters: 2016; is numeric: FALSE; call parents: 8 create_filter_table - length df: 1 content df: 2016 create_filter_table - 2016 date filter length: 1, nchar date_filter: 4 get_eurostat_data - date_filter: 2016 nrow dft: 1 -?startPeriod=2016-01-01&endPeriod=2016-12-31 https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2016-01-01&endPeriod=2016-12-31 trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/?startPeriod=2016-01-01&endPeriod=2016-12-31' downloaded 137 KB get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 508 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:508; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS get_eurostat_data - processed restat - nrow:494; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: date filter: ?startPeriod=2016-01-01&endPeriod=2016-12-31 get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_cache - The 'agr_r_milkpr.en.dsd' was loaded from 'agr_r_milkpr.en.dsd' in '.restatapi_env'. create_filter_table - filters class: character; size: 1; filters:AT ...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34+EL11+EL3+EL30+EL51+ES51+ES52+HR+HR02+HR03+HR04+HR06+HR01+ITF5+LV+LV0+LV00+HU22+RO4+SK01+NO01+NO03+NO04+NO05+UKD3+UKK1+TR2+TR5+TR63+TR72+TR8+TR83+TRB1+TRC3- https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34+EL11+EL3+EL30+EL51+ES51+ES52+HR+HR02+HR03+HR04+HR06+HR01+ITF5+LV+LV0+LV00+HU22+RO4+SK01+NO01+NO03+NO04+NO05+UKD3+UKK1+TR2+TR5+TR63+TR72+TR8+TR83+TRB1+TRC3/ trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34+EL11+EL3+EL30+EL51+ES51+ES52+HR+HR02+HR03+HR04+HR06+HR01+ITF5+LV+LV0+LV00+HU22+RO4+SK01+NO01+NO03+NO04+NO05+UKD3+UKK1+TR2+TR5+TR63+TR72+TR8+TR83+TRB1+TRC3/' downloaded 83 KB get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 46 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:1004; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS get_eurostat_data - processed restat - nrow:993; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: ...AT+AT1+AT11+AT12+AT13+AT2+AT21+AT22+AT3+AT31+AT32+AT33+AT34+EL11+EL3+EL30+EL51+ES51+ES52+HR+HR02+HR03+HR04+HR06+HR01+ITF5+LV+LV0+LV00+HU22+RO4+SK01+NO01+NO03+NO04+NO05+UKD3+UKK1+TR2+TR5+TR63+TR72+TR8+TR83+TRB1+TRC3 date filter: test_restatapi.R.............. 24 tests 1 fails get_eurostat_dsd - API version:2 get_eurostat_dsd - Trying to download the DSD from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children' downloaded 12.4 MB get_eurostat_dsd - Warning by the download of the DSD file: URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children': Timeout of 60 seconds was reached utils::download.file(dsd_endpoint, temp, dmethod) get_eurostat_dsd - class(temp): character - is.na(temp): FALSE - file.size(temp): 12957834 - temp: /tmp/th798/30958541/RtmpdgPFvG/file10ffdca70c1f3 Trying to extract the DSD from: /tmp/th798/30958541/RtmpdgPFvG/file10ffdca70c1f3 get_eurostat_dsd - Error during the extraction of the XML from the downloaded DSD file: Premature end of data in tag AnnotationType line 4 [77] read_xml.character(temp) get_eurostat_dsd - The dsd_xml is NULL. Please check in a browser the url below. If it provides valid response you can try again to download the DSD. https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/avia_par_me?references=children test_restatapi.R.............. 24 tests 1 fails test_restatapi.R.............. 24 tests 1 fails test_restatapi.R.............. 24 tests 1 fails test_restatapi.R.............. 24 tests 1 fails test_restatapi.R.............. 26 tests 1 fails test_restatapi.R.............. 27 tests 1 fails test_restatapi.R.............. 27 tests 1 fails test_restatapi.R.............. 28 tests 1 fails test_restatapi.R.............. 30 tests 1 fails test_restatapi.R.............. 31 tests 1 fails test_restatapi.R.............. 35 tests 1 fails test_restatapi.R.............. 37 tests 1 fails test_restatapi.R.............. 39 tests 1 fails test_restatapi.R.............. 40 tests 1 fails test_restatapi.R.............. 41 tests 1 fails test_restatapi.R.............. 42 tests 1 fails test_restatapi.R.............. 43 tests 1 fails test_restatapi.R.............. 44 tests 1 fails test_restatapi.R.............. 45 tests 1 fails test_restatapi.R.............. 46 tests 1 fails test_restatapi.R.............. 47 tests 1 fails test_restatapi.R.............. 48 tests 1 fails test_restatapi.R.............. 49 tests 1 fails test_restatapi.R.............. 50 tests 1 fails test_restatapi.R.............. 51 tests 1 fails test_restatapi.R.............. 52 tests 1 fails test_restatapi.R.............. 53 tests 1 fails get_eurostat_raw - API version:2 get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/tus_00age?format=TSV&compressed=true get_eurostat_raw - class(raw): data.tabledata.frame get_eurostat_raw - caching in raw: TRUE get_eurostat_raw - local filter: FALSE get_eurostat_raw - called from: get_eurostat_rawtestid7 get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE get_eurostat_raw - The raw data was cached in memory ('r_tus_00age-2026.08.16-0' in '.restatapi_env'). test_restatapi.R.............. 53 tests 1 fails get_eurostat_dsd - API version:2 get_eurostat_dsd - Trying to download the DSD from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/tus_00age?references=children trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/tus_00age?references=children' downloaded 3.7 MB get_eurostat_dsd - class(temp): character - is.na(temp): FALSE - file.size(temp): 3901770 - temp: /tmp/th798/30958541/RtmpdgPFvG/file10ffdc4e76f683 Trying to extract the DSD from: /tmp/th798/30958541/RtmpdgPFvG/file10ffdc4e76f683 get_eurostat_dsd - concepts:freq,unit,sex,age,acl00,geo,OBS_FLAG,CONF_STATUS extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="FREQ"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="FREQ"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="UNIT"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="UNIT"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="SEX"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="SEX"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="AGE"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="AGE"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="ACL00"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="ACL00"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="GEO"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="GEO"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="OBS_FLAG"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="OBS_FLAG"]/s:Code/c:Name[@xml:lang="en"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="CONF_STATUS"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="CONF_STATUS"]/s:Code/c:Name[@xml:lang="en"] get_eurostat_dsd - DSD NULL:FALSE get_eurostat_dsd - Trying to download the CC from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/tus_00age trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/tus_00age' Content type 'application/vnd.sdmx.structure+xml;version=2.1' length 3844 bytes ================================================== downloaded 3844 bytes get_eurostat_dsd - Trying to extract the CC from: /tmp/th798/30958541/RtmpdgPFvG/file10ffdc4e7b936f character number of nodes: 7 number of cores: 2 get_eurostat_dsd - The DSD of the tus_00age dataset was cached in memory ('tus_00age.en.dsd' in '.restatapi_env'). test_restatapi.R.............. 53 tests 1 fails create_filter_table - filters class: character; size: 3; filters:TIME_SPHungaryT test_restatapi.R.............. 54 tests 1 fails get_eurostat_raw - API version:2 get_eurostat_raw - bulk url: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/avia_par_me?format=TSV&compressed=true get_eurostat_raw - class(raw): data.tabledata.frame get_eurostat_raw - caching in raw: TRUE get_eurostat_raw - local filter: FALSE get_eurostat_raw - called from: get_eurostat_rawtestid6 get_eurostat_raw - get_eurostat_raw in sys.call(): FALSE get_eurostat_raw - The raw data was cached in memory ('r_avia_par_me-2026.08.16-0' in '.restatapi_env'). test_restatapi.R.............. 54 tests 1 fails create_filter_table - filters class: character; size: 1; filters:2017:2018 create_filter_table - filters: 2017:2018; is numeric: FALSE; call parents: 6 create_filter_table - length df: 1 content df: 2017:2018 create_filter_table - 2017:2018 date filter length: 1, nchar date_filter: 9 test_restatapi.R.............. 55 tests 1 fails get_eurostat_codelist - API version:2 get_eurostat_codelist - API version:2 get_eurostat_codelist - Trying to download the codelist from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/codelist/ESTAT/SEX trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/codelist/ESTAT/SEX' Content type 'application/vnd.sdmx.structure+xml;version=2.1' length 5941 bytes ================================================== downloaded 5941 bytes Trying to extract the codelist from: /tmp/th798/30958541/RtmpdgPFvG/file10ffdc25c96ef8 get_eurostat_codelist - codelist NULL:TRUE test_restatapi.R.............. 55 tests 1 fails test_restatapi.R.............. 57 tests 1 fails 4.18.0-553.124.1.el8_10.x86_64 test_restatapi.R.............. 57 tests 1 fails Are we at home:FALSE test_restatapi.R.............. 57 tests 1 fails test_restatapi.R.............. 57 tests 1 fails get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=fr trying URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=fr' downloaded 2.1 MB get_eurostat_toc - The TOC was cached in memory ('toc.txt.fr' in '.restatapi_env'). test_restatapi.R.............. 57 tests 1 fails get_eurostat_toc - API version:2 - number of cores:2 get_eurostat_toc - Downloading https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=de trying URL 'https://ec.europa.eu/eurostat/api/dissemination/catalogue/toc/txt?lang=de' downloaded 2.0 MB get_eurostat_toc - The TOC was cached in memory ('toc.txt.de' in '.restatapi_env'). test_restatapi.R.............. 57 tests 1 fails test_restatapi.R.............. 58 tests 1 fails get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_dsd - API version:2 get_eurostat_dsd - Trying to download the DSD from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/agr_r_milkpr?references=children trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/datastructure/ESTAT/agr_r_milkpr?references=children' downloaded 2.9 MB get_eurostat_dsd - class(temp): character - is.na(temp): FALSE - file.size(temp): 3008178 - temp: /tmp/th798/30958541/RtmpdgPFvG/file10ffdc3f072dc3 Trying to extract the DSD from: /tmp/th798/30958541/RtmpdgPFvG/file10ffdc3f072dc3 get_eurostat_dsd - concepts:freq,milkitem,dairyprod,geo,OBS_FLAG,CONF_STATUS extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="FREQ"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="FREQ"]/s:Code/c:Name[@xml:lang="de"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="MILKITEM"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="MILKITEM"]/s:Code/c:Name[@xml:lang="de"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="DAIRYPROD"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="DAIRYPROD"]/s:Code/c:Name[@xml:lang="de"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="GEO"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="GEO"]/s:Code/c:Name[@xml:lang="de"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="OBS_FLAG"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="OBS_FLAG"]/s:Code/c:Name[@xml:lang="de"] extract_dsd - API version:2 extract_dsd - xml_string_clc://s:Codelist[@id="CONF_STATUS"]/s:Code extract_dsd - xml_string_cln://s:Codelist[@id="CONF_STATUS"]/s:Code/c:Name[@xml:lang="de"] get_eurostat_dsd - DSD NULL:FALSE get_eurostat_dsd - Trying to download the CC from: https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/agr_r_milkpr trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/contentconstraint/ESTAT/agr_r_milkpr' downloaded 15 KB get_eurostat_dsd - Trying to extract the CC from: /tmp/th798/30958541/RtmpdgPFvG/file10ffdcc379d15 character number of nodes: 5 number of cores: 2 get_eurostat_dsd - The DSD of the agr_r_milkpr dataset was cached in memory ('agr_r_milkpr.de.dsd' in '.restatapi_env'). create_filter_table - filters class: character; size: 2; filters:BE$Ungarn get_eurostat_data - date_filter: 2007-06< create_filter_table - filters class: character; size: 1; filters:2007-06< create_filter_table - filters: 2007-06<; is numeric: FALSE; call parents: 7 create_filter_table - length df: 1 content df: 2007-06< create_filter_table - 2007-06< date filter length: 1, nchar date_filter: 8 get_eurostat_data - date_filter: 2007-06< nrow dft: 1 ...BE+HU-?startPeriod=2007-06-01 https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...BE+HU/?startPeriod=2007-06-01 trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...BE+HU/?startPeriod=2007-06-01' Content type 'application/vnd.sdmx.genericdata+xml;version=2.1' length 3959 bytes ================================================== downloaded 3959 bytes get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 2 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:34; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS get_eurostat_data - processed restat - nrow:34; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: ...BE+HU date filter: ?startPeriod=2007-06-01 test_restatapi.R.............. 58 tests 1 fails get_eurostat_data - footer code option value at start: get_eurostat_data - footer code option value after reset: get_eurostat_data - id: agr_r_milkpr get_eurostat_data - select_freq: get_eurostat_cache - The 'agr_r_milkpr.en.dsd' was loaded from 'agr_r_milkpr.en.dsd' in '.restatapi_env'. create_filter_table - filters class: character; size: 2; filters:BE$Hungary get_eurostat_data - date_filter: 2007-06< create_filter_table - filters class: character; size: 1; filters:2007-06< create_filter_table - filters: 2007-06<; is numeric: FALSE; call parents: 7 create_filter_table - length df: 1 content df: 2007-06< create_filter_table - 2007-06< date filter length: 1, nchar date_filter: 8 get_eurostat_data - date_filter: 2007-06< nrow dft: 1 ...BE+HU-?startPeriod=2007-06-01 https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...BE+HU/?startPeriod=2007-06-01 trying URL 'https://ec.europa.eu/eurostat/api/dissemination/sdmx/2.1/data/agr_r_milkpr/...BE+HU/?startPeriod=2007-06-01' Content type 'application/vnd.sdmx.genericdata+xml;version=2.1' length 3959 bytes ================================================== downloaded 3959 bytes get_eurostat_data - class(xml_leafs):xml_nodeset get_eurostat_data - number of nodes: 2 get_eurostat_data - number of cores: 2 get_eurostat_data - footer code option value after retrieval: get_eurostat_data - restat - nrow:34; ncol:7; colnames:geo/milkitem/freq/dairyprod/obsTime/obsValue/OBS_STATUS get_eurostat_data - processed restat - nrow:34; ncol:6; colnames:geo/milkitem/dairyprod/time/values/flags get_eurostat_data - restat NULL?:FALSE id: agr_r_milkpr filters: ...BE+HU date filter: ?startPeriod=2007-06-01 test_restatapi.R.............. 58 tests 1 fails test_restatapi.R.............. 59 tests 1 fails clean_restatapi_cache - All objects (outside of 'cfg', 'rav', 'cc' and 'dmethod') are removed from '.restatapi_env'. clean_restatapi_cache - Deleted all .rds files from /tmp/th798/30958541/RtmpdgPFvG test_restatapi.R.............. 59 tests 1 fails There are skipped tests:2-7,8,9,14-17,18,22-29,33-34,44,49-50,54 test_restatapi.R.............. 59 tests 1 fails Skipped tests: 2-7,8,9,14-17,18,22-29,33-34,44,49-50,54 config version: 2 test_restatapi.R.............. 59 tests 1 fails test_restatapi.R.............. 59 tests 1 fails 11.1s ----- FAILED[data]: test_restatapi.R<169--169> call| expect_true(is.null(dt8)) diff| Expected TRUE, got FALSE Error: 1 out of 59 tests failed Execution halted * checking PDF version of manual ... OK * DONE Status: 1 ERROR checking msg 1: for file 'restatapi/DESCRIPTION' OK 2: package namespace information OK 3: package dependencies OK 4: if this is a source package OK 5: if there is a namespace OK 6: for executable files OK 7: for hidden files and directories OK 8: for portable file names OK 9: for sufficient/correct file permissions OK 10: whether package 'restatapi' can be installed OK 11: package directory OK 12: DESCRIPTION meta-information OK 13: top-level files OK 14: for left-over files OK 15: index information OK 16: package subdirectories OK 17: code files for non-ASCII characters OK 18: R files for syntax errors OK 19: whether the package can be loaded OK 20: whether the package can be loaded with stated dependencies OK 21: whether the package can be unloaded cleanly OK 22: whether the namespace can be loaded with stated dependencies OK 23: whether the namespace can be unloaded cleanly OK 24: loading without being on the library search path OK 25: whether startup messages can be suppressed OK 26: dependencies in R code OK 27: S3 generic/method consistency OK 28: replacement functions OK 29: foreign function calls OK 30: R code for possible problems OK 31: Rd files OK 32: Rd metadata OK 33: Rd cross-references OK 34: for missing documentation entries OK 35: for code/documentation mismatches OK 36: Rd \\usage sections OK 37: Rd contents OK 38: for unstated dependencies in examples OK 39: examples OK 40: for unstated dependencies in 'tests' OK 41: tests ERROR 42: PDF version of manual OK checking msg checking msg 1: tests ERROR Bisecting: 2 revisions left to test after this (roughly 2 steps) [2845ac13d0ddc7bf20edbf5e5b58b9d587b0f698] fix clang CI warnings (#7767) running '/home/th798/R/R-devel/bin/Rscript' '/home/th798/genomic-ml/data.table-revdeps/install_dt_then_check_dep.R' 'tests' 'ERROR' '/projects/genomic-ml/CRAN/src/contrib/restatapi_0.25.0.tar.gz' '1.18.4' checking "tests" expected "ERROR" rev_dep_tar_gz "/projects/genomic-ml/CRAN/src/contrib/restatapi_0.25.0.tar.gz" dt_release_version "1.18.4" zlib 1.2.13 is available ok * checking if OpenMP works with CFLAGS='' LIBS=''... no * checking if OpenMP works with CFLAGS='$(SHLIB_OPENMP_CFLAGS)' LIBS='$(SHLIB_OPENMP_CFLAGS)'... yes /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c assign.c -o assign.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c coalesce.c -o coalesce.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c dogroups.c -o dogroups.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fmelt.c -o fmelt.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c freadR.c -o freadR.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c nafill.c -o nafill.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c reorder.c -o reorder.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c subset.c -o subset.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c transpose.c -o transpose.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c utils.c -o utils.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c wrappers.c -o wrappers.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o data.table.so assign.o between.o bmerge.o chmatch.o cj.o coalesce.o dogroups.o fastmean.o fcast.o fifelse.o fmelt.o forder.o frank.o fread.o freadR.o froll.o frollR.o frolladaptive.o frollapply.o fsort.o fwrite.o fwriteR.o gsumm.o hash.o idatetime.o ijoin.o init.o inrange.o mergelist.o nafill.o negate.o nqrecreateindices.o openmp-utils.o programming.o quickselect.o rbindlist.o reorder.o shellsort.o shift.o snprintf.o subset.o transpose.o types.o uniqlist.o utils.o vecseq.o wrappers.o -fvisibility=hidden -fopenmp -L/home/th798/.conda/envs/emacs1/lib -lz PKG_CFLAGS = -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include PKG_LIBS = -fvisibility=hidden -fopenmp -L/home/th798/.conda/envs/emacs1/lib -lz if [ "data.table.so" != "data_table.so" ]; then mv data.table.so data_table.so; fi if [ "" != "Windows_NT" ] && [ `uname -s` = 'Darwin' ]; then install_name_tool -id data_table.so data_table.so; fi * using log directory '/tmp/th798/30958541/R-devel/1314/data.table.git/restatapi.Rcheck' * using R Under development (unstable) (2026-08-15 r90413) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Spack GCC) 12.2.0 GNU Fortran (Spack GCC) 12.2.0 * running under: Red Hat Enterprise Linux 8.10 (Ootpa) * using session charset: ASCII * current time: 2026-08-16 11:46:04 UTC * checking for file 'restatapi/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'restatapi' version '0.25.0' * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package 'restatapi' can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking code files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking loading without being on the library search path ... OK * checking whether startup messages can be suppressed ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking examples ... OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... Running 'tinytest.R' OK * checking PDF version of manual ... OK * DONE Status: OK checking msg 1: for file 'restatapi/DESCRIPTION' OK 2: package namespace information OK 3: package dependencies OK 4: if this is a source package OK 5: if there is a namespace OK 6: for executable files OK 7: for hidden files and directories OK 8: for portable file names OK 9: for sufficient/correct file permissions OK 10: whether package 'restatapi' can be installed OK 11: package directory OK 12: DESCRIPTION meta-information OK 13: top-level files OK 14: for left-over files OK 15: index information OK 16: package subdirectories OK 17: code files for non-ASCII characters OK 18: R files for syntax errors OK 19: whether the package can be loaded OK 20: whether the package can be loaded with stated dependencies OK 21: whether the package can be unloaded cleanly OK 22: whether the namespace can be loaded with stated dependencies OK 23: whether the namespace can be unloaded cleanly OK 24: loading without being on the library search path OK 25: whether startup messages can be suppressed OK 26: dependencies in R code OK 27: S3 generic/method consistency OK 28: replacement functions OK 29: foreign function calls OK 30: R code for possible problems OK 31: Rd files OK 32: Rd metadata OK 33: Rd cross-references OK 34: for missing documentation entries OK 35: for code/documentation mismatches OK 36: Rd \\usage sections OK 37: Rd contents OK 38: for unstated dependencies in examples OK 39: examples OK 40: for unstated dependencies in 'tests' OK 41: tests OK 42: PDF version of manual OK checking msg checking msg 1: tests OK Bisecting: 0 revisions left to test after this (roughly 1 step) [1b998b10e8d6cef62909a1276686ac16c98f5c10] add setallocrow (#7644) running '/home/th798/R/R-devel/bin/Rscript' '/home/th798/genomic-ml/data.table-revdeps/install_dt_then_check_dep.R' 'tests' 'ERROR' '/projects/genomic-ml/CRAN/src/contrib/restatapi_0.25.0.tar.gz' '1.18.4' checking "tests" expected "ERROR" rev_dep_tar_gz "/projects/genomic-ml/CRAN/src/contrib/restatapi_0.25.0.tar.gz" dt_release_version "1.18.4" zlib 1.2.13 is available ok * checking if OpenMP works with CFLAGS='' LIBS=''... no * checking if OpenMP works with CFLAGS='$(SHLIB_OPENMP_CFLAGS)' LIBS='$(SHLIB_OPENMP_CFLAGS)'... yes /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c freadR.c -o freadR.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c nafill.c -o nafill.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o data.table.so assign.o between.o bmerge.o chmatch.o cj.o coalesce.o dogroups.o fastmean.o fcast.o fifelse.o fmelt.o forder.o frank.o fread.o freadR.o froll.o frollR.o frolladaptive.o frollapply.o fsort.o fwrite.o fwriteR.o gsumm.o hash.o idatetime.o ijoin.o init.o inrange.o mergelist.o nafill.o negate.o nqrecreateindices.o openmp-utils.o programming.o quickselect.o rbindlist.o reorder.o shellsort.o shift.o snprintf.o subset.o transpose.o types.o uniqlist.o utils.o vecseq.o wrappers.o -fvisibility=hidden -fopenmp -L/home/th798/.conda/envs/emacs1/lib -lz PKG_CFLAGS = -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include PKG_LIBS = -fvisibility=hidden -fopenmp -L/home/th798/.conda/envs/emacs1/lib -lz if [ "data.table.so" != "data_table.so" ]; then mv data.table.so data_table.so; fi if [ "" != "Windows_NT" ] && [ `uname -s` = 'Darwin' ]; then install_name_tool -id data_table.so data_table.so; fi * using log directory '/tmp/th798/30958541/R-devel/1314/data.table.git/restatapi.Rcheck' * using R Under development (unstable) (2026-08-15 r90413) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Spack GCC) 12.2.0 GNU Fortran (Spack GCC) 12.2.0 * running under: Red Hat Enterprise Linux 8.10 (Ootpa) * using session charset: ASCII * current time: 2026-08-16 11:53:17 UTC * checking for file 'restatapi/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'restatapi' version '0.25.0' * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package 'restatapi' can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking code files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking loading without being on the library search path ... OK * checking whether startup messages can be suppressed ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking examples ... OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... Running 'tinytest.R' OK * checking PDF version of manual ... OK * DONE Status: OK checking msg 1: for file 'restatapi/DESCRIPTION' OK 2: package namespace information OK 3: package dependencies OK 4: if this is a source package OK 5: if there is a namespace OK 6: for executable files OK 7: for hidden files and directories OK 8: for portable file names OK 9: for sufficient/correct file permissions OK 10: whether package 'restatapi' can be installed OK 11: package directory OK 12: DESCRIPTION meta-information OK 13: top-level files OK 14: for left-over files OK 15: index information OK 16: package subdirectories OK 17: code files for non-ASCII characters OK 18: R files for syntax errors OK 19: whether the package can be loaded OK 20: whether the package can be loaded with stated dependencies OK 21: whether the package can be unloaded cleanly OK 22: whether the namespace can be loaded with stated dependencies OK 23: whether the namespace can be unloaded cleanly OK 24: loading without being on the library search path OK 25: whether startup messages can be suppressed OK 26: dependencies in R code OK 27: S3 generic/method consistency OK 28: replacement functions OK 29: foreign function calls OK 30: R code for possible problems OK 31: Rd files OK 32: Rd metadata OK 33: Rd cross-references OK 34: for missing documentation entries OK 35: for code/documentation mismatches OK 36: Rd \\usage sections OK 37: Rd contents OK 38: for unstated dependencies in examples OK 39: examples OK 40: for unstated dependencies in 'tests' OK 41: tests OK 42: PDF version of manual OK checking msg checking msg 1: tests OK Bisecting: 0 revisions left to test after this (roughly 0 steps) [cf55fc8fe75528d307722adc477486c0b48a02c6] prohibit duplicate key columns (#7760) running '/home/th798/R/R-devel/bin/Rscript' '/home/th798/genomic-ml/data.table-revdeps/install_dt_then_check_dep.R' 'tests' 'ERROR' '/projects/genomic-ml/CRAN/src/contrib/restatapi_0.25.0.tar.gz' '1.18.4' checking "tests" expected "ERROR" rev_dep_tar_gz "/projects/genomic-ml/CRAN/src/contrib/restatapi_0.25.0.tar.gz" dt_release_version "1.18.4" zlib 1.2.13 is available ok * checking if OpenMP works with CFLAGS='' LIBS=''... no * checking if OpenMP works with CFLAGS='$(SHLIB_OPENMP_CFLAGS)' LIBS='$(SHLIB_OPENMP_CFLAGS)'... yes /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c assign.c -o assign.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c coalesce.c -o coalesce.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c dogroups.c -o dogroups.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fmelt.c -o fmelt.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c reorder.c -o reorder.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c subset.c -o subset.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c transpose.c -o transpose.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c utils.c -o utils.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-devel/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c wrappers.c -o wrappers.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o data.table.so assign.o between.o bmerge.o chmatch.o cj.o coalesce.o dogroups.o fastmean.o fcast.o fifelse.o fmelt.o forder.o frank.o fread.o freadR.o froll.o frollR.o frolladaptive.o frollapply.o fsort.o fwrite.o fwriteR.o gsumm.o hash.o idatetime.o ijoin.o init.o inrange.o mergelist.o nafill.o negate.o nqrecreateindices.o openmp-utils.o programming.o quickselect.o rbindlist.o reorder.o shellsort.o shift.o snprintf.o subset.o transpose.o types.o uniqlist.o utils.o vecseq.o wrappers.o -fvisibility=hidden -fopenmp -L/home/th798/.conda/envs/emacs1/lib -lz PKG_CFLAGS = -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include PKG_LIBS = -fvisibility=hidden -fopenmp -L/home/th798/.conda/envs/emacs1/lib -lz if [ "data.table.so" != "data_table.so" ]; then mv data.table.so data_table.so; fi if [ "" != "Windows_NT" ] && [ `uname -s` = 'Darwin' ]; then install_name_tool -id data_table.so data_table.so; fi * using log directory '/tmp/th798/30958541/R-devel/1314/data.table.git/restatapi.Rcheck' * using R Under development (unstable) (2026-08-15 r90413) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Spack GCC) 12.2.0 GNU Fortran (Spack GCC) 12.2.0 * running under: Red Hat Enterprise Linux 8.10 (Ootpa) * using session charset: ASCII * current time: 2026-08-16 11:57:18 UTC * checking for file 'restatapi/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'restatapi' version '0.25.0' * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package 'restatapi' can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking code files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking loading without being on the library search path ... OK * checking whether startup messages can be suppressed ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking examples ... OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... Running 'tinytest.R' OK * checking PDF version of manual ... OK * DONE Status: OK checking msg 1: for file 'restatapi/DESCRIPTION' OK 2: package namespace information OK 3: package dependencies OK 4: if this is a source package OK 5: if there is a namespace OK 6: for executable files OK 7: for hidden files and directories OK 8: for portable file names OK 9: for sufficient/correct file permissions OK 10: whether package 'restatapi' can be installed OK 11: package directory OK 12: DESCRIPTION meta-information OK 13: top-level files OK 14: for left-over files OK 15: index information OK 16: package subdirectories OK 17: code files for non-ASCII characters OK 18: R files for syntax errors OK 19: whether the package can be loaded OK 20: whether the package can be loaded with stated dependencies OK 21: whether the package can be unloaded cleanly OK 22: whether the namespace can be loaded with stated dependencies OK 23: whether the namespace can be unloaded cleanly OK 24: loading without being on the library search path OK 25: whether startup messages can be suppressed OK 26: dependencies in R code OK 27: S3 generic/method consistency OK 28: replacement functions OK 29: foreign function calls OK 30: R code for possible problems OK 31: Rd files OK 32: Rd metadata OK 33: Rd cross-references OK 34: for missing documentation entries OK 35: for code/documentation mismatches OK 36: Rd \\usage sections OK 37: Rd contents OK 38: for unstated dependencies in examples OK 39: examples OK 40: for unstated dependencies in 'tests' OK 41: tests OK 42: PDF version of manual OK checking msg checking msg 1: tests OK cf55fc8fe75528d307722adc477486c0b48a02c6 is the first new commit commit cf55fc8fe75528d307722adc477486c0b48a02c6 Author: Benjamin Schwendinger <52290390+ben-schwen@users.noreply.github.com> Date: Wed May 27 22:22:50 2026 +0200 prohibit duplicate key columns (#7760) * prohibit duplicate key columns * update test setup * adjust test setups * add Mikes found cases * use CJ(, sorted=FALSE) and sort afterwards * cache grpnames NEWS.md | 2 ++ R/data.table.R | 24 ++++++++++++++++++------ R/setkey.R | 4 ++++ R/utils.R | 11 +++++++++++ inst/tests/tests.Rraw | 35 ++++++++++++++++++++++++++++------- 5 files changed, 63 insertions(+), 13 deletions(-) bisect found first bad commit Key: checking master release first.bad.commit 1: tests OK ERROR cf55fc8fe75528d307722adc477486c0b48a02c6 comments CRAN 1: parent=043aa6b5f52ddac747c3364ca6de829926037a5f OK > WARNING: ignoring environment value of R_HOME R version 4.6.1 (2026-06-24) -- "Happy Hop" Copyright (C) 2026 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. > (cargs <- commandArgs(trailingOnly=TRUE)) [1] "/scratch/th798/data.table-revdeps/2026-08-16/deps.csv" [2] "1314" [3] "/scratch/th798/data.table-revdeps/2026-08-16/data.table_release_1.18.4.tar.gz" [4] "/scratch/th798/data.table-revdeps/2026-08-16/data.table_master_1.18.99.813ed951c5bac35d0d31626cc7ab7e3192aec9f6.tar.gz" > if(length(cargs)==0){ + ## before running interactively, make sure to start emacs/R with + ## environment defined in /scratch/...check_one.sh, particularly + ## R_LIBS_USER=/tmp/... otherwise we get error when installing + ## data.table. + base <- "/scratch/th798/data.table-revdeps/*" + cargs <- c( + Sys.glob(file.path(base,"deps.csv")), + "9", + Sys.glob(file.path(base, "data.table_release_*tar.gz")), + Sys.glob(file.path(base, "data.table_master_*tar.gz")) + ) + } > names(cargs) <- c("deps.csv", "task.str", "release", "master") > dput(cargs) c(deps.csv = "/scratch/th798/data.table-revdeps/2026-08-16/deps.csv", task.str = "1314", release = "/scratch/th798/data.table-revdeps/2026-08-16/data.table_release_1.18.4.tar.gz", master = "/scratch/th798/data.table-revdeps/2026-08-16/data.table_master_1.18.99.813ed951c5bac35d0d31626cc7ab7e3192aec9f6.tar.gz" ) > (task.dir <- dirname(.libPaths()[1]))#should be /tmp/th798/slurmid/R-vers [1] "/tmp/th798/30958541/R-release/1314" > if(requireNamespace("R.cache"))R.cache::getCachePath() Loading required namespace: R.cache Failed with error: 'there is no package called 'R.cache'' > task.id <- as.integer(cargs[["task.str"]]) > deps.df <- read.csv(cargs[["deps.csv"]]) > (deps.row <- deps.df[task.id,]) Package task.id Version 1314 restatapi 1314 0.25.0 > (rev.dep <- deps.row$Package) [1] "restatapi" > job.dir <- file.path(dirname(cargs[["deps.csv"]]), "tasks", task.id) > setwd(task.dir) > .libPaths() [1] "/tmp/th798/30958541/R-release/1314/library" [2] "/projects/genomic-ml/R/R-release/library" > local.CRAN <- "/projects/genomic-ml/CRAN" > cran.url <- paste0("file://", local.CRAN) > #this should be in ~/.Rprofile too. > options(repos=c(CRAN=cran.url)) > print(Sys.time()) [1] "2026-08-16 05:01:06 MST" > install.time <- system.time({ + install.packages(rev.dep, dep=TRUE) + }) Installing package into '/tmp/th798/30958541/R-release/1314/library' (as 'lib' is unspecified) also installing the dependencies 'fs', 'R6', 'rappdirs', 'base64enc', 'cachem', 'fastmap', 'lifecycle', 'memoise', 'mime', 'sass', 'digest', 'cli', 'rlang', 'evaluate', 'highr', 'xfun', 'yaml', 'bslib', 'fontawesome', 'htmltools', 'jquerylib', 'jsonlite', 'tinytex', 'rjson', 'xml2', 'chron', 'knitr', 'rmarkdown', 'tinytest', 'remotes' * installing *source* package 'fs' ... ** this is package 'fs' version '2.1.0' ** package 'fs' successfully unpacked and MD5 sums checked ** using staged installation Found pkg-config cflags and libs! Using PKG_CFLAGS=-I/home/th798/.conda/envs/emacs1/include Using PKG_LIBS=-L/home/th798/.conda/envs/emacs1/lib -luv -lrt -ldl ** libs using C++ compiler: 'g++ (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c dir.cc -o dir.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c error.cc -o error.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c file.cc -o file.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fs.cc -o fs.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c getmode.cc -o getmode.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c id.cc -o id.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.cc -o init.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c link.cc -o link.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c path.cc -o path.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c utils.cc -o utils.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c unix/getmode.cc -o unix/getmode.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c bsd/setmode.c -o bsd/setmode.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c bsd/strmode.c -o bsd/strmode.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c bsd/reallocarray.c -o bsd/reallocarray.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o fs.so dir.o error.o file.o fs.o getmode.o id.o init.o link.o path.o utils.o unix/getmode.o bsd/setmode.o bsd/strmode.o bsd/reallocarray.o -L/home/th798/.conda/envs/emacs1/lib -luv -lrt -ldl installing to /tmp/th798/30958541/R-release/1314/library/00LOCK-fs/00new/fs/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (fs) * installing *source* package 'R6' ... ** this is package 'R6' version '2.6.1' ** package 'R6' successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (R6) * installing *source* package 'rappdirs' ... ** this is package 'rappdirs' version '0.3.4' ** package 'rappdirs' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c win-path.c -o win-path.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o rappdirs.so init.o win-path.o installing to /tmp/th798/30958541/R-release/1314/library/00LOCK-rappdirs/00new/rappdirs/libs ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (rappdirs) * installing *source* package 'base64enc' ... ** this is package 'base64enc' version '0.1-6' ** package 'base64enc' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c base64.c -o base64.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c dummy.c -o dummy.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c uriencode.c -o uriencode.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c utf8.c -o utf8.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o base64enc.so base64.o dummy.o uriencode.o utf8.o installing to /tmp/th798/30958541/R-release/1314/library/00LOCK-base64enc/00new/base64enc/libs ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (base64enc) * installing *source* package 'fastmap' ... ** this is package 'fastmap' version '1.2.0' ** package 'fastmap' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' using C++ compiler: 'g++ (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-release/include" -DNDEBUG -Ilib/ -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -DR_NO_REMAP -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fastmap.cpp -o fastmap.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Ilib/ -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o fastmap.so fastmap.o init.o installing to /tmp/th798/30958541/R-release/1314/library/00LOCK-fastmap/00new/fastmap/libs ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (fastmap) * installing *source* package 'mime' ... ** this is package 'mime' version '0.13' ** package 'mime' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c rawmatch.c -o rawmatch.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o mime.so init.o rawmatch.o installing to /tmp/th798/30958541/R-release/1314/library/00LOCK-mime/00new/mime/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (mime) * installing *source* package 'digest' ... ** this is package 'digest' version '0.6.39' ** package 'digest' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' using C++ compiler: 'g++ (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c SpookyV2.cpp -o SpookyV2.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c aes.c -o aes.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c blake3.c -o blake3.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c blake3_dispatch.c -o blake3_dispatch.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c blake3_portable.c -o blake3_portable.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c crc32.c -o crc32.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c crc32c.cpp -o crc32c.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c crc32c_portable.cpp -o crc32c_portable.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c digest.c -o digest.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c digest2int.c -o digest2int.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c md5.c -o md5.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c pmurhash.c -o pmurhash.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c raes.c -o raes.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c sha1.c -o sha1.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c sha2.c -o sha2.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c sha256.c -o sha256.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c spooky_serialize.cpp -o spooky_serialize.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c xxhash.c -o xxhash.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o digest.so SpookyV2.o aes.o blake3.o blake3_dispatch.o blake3_portable.o crc32.o crc32c.o crc32c_portable.o digest.o digest2int.o init.o md5.o pmurhash.o raes.o sha1.o sha2.o sha256.o spooky_serialize.o xxhash.o installing to /tmp/th798/30958541/R-release/1314/library/00LOCK-digest/00new/digest/libs ** R ** demo ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (digest) * installing *source* package 'cli' ... ** this is package 'cli' version '3.6.6' ** package 'cli' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c ansi.c -o ansi.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c cleancall.c -o cleancall.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c diff.c -o diff.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c errors.c -o errors.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c glue.c -o glue.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c inst.c -o inst.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c keypress-unix.c -o keypress-unix.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c keypress-win.c -o keypress-win.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c keypress.c -o keypress.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c md5.c -o md5.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c progress-altrep.c -o progress-altrep.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c progress.c -o progress.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c sha1.c -o sha1.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c sha256.c -o sha256.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c thread.c -o thread.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c tty.c -o tty.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c utf8.c -o utf8.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c utils.c -o utils.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c vt.c -o vt.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c vtparse.c -o vtparse.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c vtparse_table.c -o vtparse_table.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c win-utf8.c -o win-utf8.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c winfiles.c -o winfiles.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c xxhash.c -o xxhash.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c xxhash2.c -o xxhash2.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o cli.so ansi.o cleancall.o diff.o errors.o glue.o init.o inst.o keypress-unix.o keypress-win.o keypress.o md5.o progress-altrep.o progress.o sha1.o sha256.o thread.o tty.o utf8.o utils.o vt.o vtparse.o vtparse_table.o win-utf8.o winfiles.o xxhash.o xxhash2.o -lpthread installing to /tmp/th798/30958541/R-release/1314/library/00LOCK-cli/00new/cli/libs ** R ** exec ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (cli) * installing *source* package 'rlang' ... ** this is package 'rlang' version '1.2.0' ** package 'rlang' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I./rlang/ -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c capture.c -o capture.o touch internal.c /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I./rlang/ -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c internal.c -o internal.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I./rlang/ -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c rlang.c -o rlang.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I./rlang/ -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c version.c -o version.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o rlang.so capture.o internal.o rlang.o version.o installing to /tmp/th798/30958541/R-release/1314/library/00LOCK-rlang/00new/rlang/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** 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 (rlang) * installing *source* package 'evaluate' ... ** this is package 'evaluate' version '1.0.5' ** package 'evaluate' successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (evaluate) * installing *source* package 'xfun' ... ** this is package 'xfun' version '0.57' ** package 'xfun' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c base64.c -o base64.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c rand_lcg.c -o rand_lcg.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o xfun.so base64.o init.o rand_lcg.o installing to /tmp/th798/30958541/R-release/1314/library/00LOCK-xfun/00new/xfun/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (xfun) * installing *source* package 'yaml' ... ** this is package 'yaml' version '2.3.12' ** package 'yaml' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c api.c -o api.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c dumper.c -o dumper.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c emitter.c -o emitter.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c implicit.c -o implicit.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c loader.c -o loader.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c parser.c -o parser.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c r_emit.c -o r_emit.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c r_ext.c -o r_ext.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c r_parse.c -o r_parse.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c reader.c -o reader.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c scanner.c -o scanner.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I. -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c writer.c -o writer.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o yaml.so api.o dumper.o emitter.o implicit.o loader.o parser.o r_emit.o r_ext.o r_parse.o reader.o scanner.o writer.o installing to /tmp/th798/30958541/R-release/1314/library/00LOCK-yaml/00new/yaml/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (yaml) * installing *source* package 'jsonlite' ... ** this is package 'jsonlite' version '2.0.0' ** package 'jsonlite' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c base64.c -o base64.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c collapse_array.c -o collapse_array.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c collapse_object.c -o collapse_object.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c collapse_pretty.c -o collapse_pretty.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c escape_chars.c -o escape_chars.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c integer64_to_na.c -o integer64_to_na.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c is_datelist.c -o is_datelist.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c is_recordlist.c -o is_recordlist.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c is_scalarlist.c -o is_scalarlist.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c modp_numtoa.c -o modp_numtoa.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c null_to_na.c -o null_to_na.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c num_to_char.c -o num_to_char.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c parse.c -o parse.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c prettify.c -o prettify.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c push_parser.c -o push_parser.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c r-base64.c -o r-base64.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c register.c -o register.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c row_collapse.c -o row_collapse.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c transpose_list.c -o transpose_list.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c validate.c -o validate.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c yajl/yajl.c -o yajl/yajl.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c yajl/yajl_alloc.c -o yajl/yajl_alloc.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c yajl/yajl_buf.c -o yajl/yajl_buf.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c yajl/yajl_encode.c -o yajl/yajl_encode.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c yajl/yajl_gen.c -o yajl/yajl_gen.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c yajl/yajl_lex.c -o yajl/yajl_lex.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c yajl/yajl_parser.c -o yajl/yajl_parser.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -Iyajl/api -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c yajl/yajl_tree.c -o yajl/yajl_tree.o ar rcs yajl/libstatyajl.a yajl/yajl.o yajl/yajl_alloc.o yajl/yajl_buf.o yajl/yajl_encode.o yajl/yajl_gen.o yajl/yajl_lex.o yajl/yajl_parser.o yajl/yajl_tree.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o jsonlite.so base64.o collapse_array.o collapse_object.o collapse_pretty.o escape_chars.o integer64_to_na.o is_datelist.o is_recordlist.o is_scalarlist.o modp_numtoa.o null_to_na.o num_to_char.o parse.o prettify.o push_parser.o r-base64.o register.o row_collapse.o transpose_list.o validate.o -Lyajl -lstatyajl installing to /tmp/th798/30958541/R-release/1314/library/00LOCK-jsonlite/00new/jsonlite/libs ** R ** inst ** byte-compile and prepare package for lazy loading in method for 'asJSON' with signature '"AsIs"': no definition for class "AsIs" in method for 'asJSON' with signature '"ITime"': no definition for class "ITime" in method for 'asJSON' with signature '"hms"': no definition for class "hms" in method for 'asJSON' with signature '"json"': no definition for class "json" in method for 'asJSON' with signature '"integer64"': no definition for class "integer64" in method for 'asJSON' with signature '"pairlist"': no definition for class "pairlist" in method for 'asJSON' with signature '"blob"': no definition for class "blob" in method for 'asJSON' with signature '"scalar"': no definition for class "scalar" in method for 'asJSON' with signature '"sf"': no definition for class "sf" in method for 'asJSON' with signature '"sfc"': no definition for class "sfc" in method for 'asJSON' with signature '"vctrs_vctr"': no definition for class "vctrs_vctr" ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (jsonlite) * installing *source* package 'rjson' ... ** this is package 'rjson' version '0.2.23' ** package 'rjson' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' using C++ compiler: 'g++ (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c dump.cpp -o dump.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c parser.c -o parser.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c register.c -o register.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o rjson.so dump.o parser.o register.o installing to /tmp/th798/30958541/R-release/1314/library/00LOCK-rjson/00new/rjson/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (rjson) * installing *source* package 'chron' ... ** this is package 'chron' version '2.3-62' ** package 'chron' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c chron_strs.c -o chron_strs.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c unpaste.c -o unpaste.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o chron.so chron_strs.o init.o unpaste.o installing to /tmp/th798/30958541/R-release/1314/library/00LOCK-chron/00new/chron/libs ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (chron) * installing *source* package 'tinytest' ... ** this is package 'tinytest' version '1.4.3' ** package 'tinytest' successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (tinytest) * installing *source* package 'remotes' ... ** this is package 'remotes' version '2.5.0' ** package 'remotes' successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (remotes) * installing *source* package 'cachem' ... ** this is package 'cachem' version '1.1.0' ** package 'cachem' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c cache.c -o cache.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o cachem.so cache.o init.o installing to /tmp/th798/30958541/R-release/1314/library/00LOCK-cachem/00new/cachem/libs ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (cachem) * installing *source* package 'lifecycle' ... ** this is package 'lifecycle' version '1.0.5' ** package 'lifecycle' successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (lifecycle) * installing *source* package 'highr' ... ** this is package 'highr' version '0.12' ** package 'highr' successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (highr) * installing *source* package 'htmltools' ... ** this is package 'htmltools' version '0.5.9' ** package 'htmltools' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c template.c -o template.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o htmltools.so init.o template.o installing to /tmp/th798/30958541/R-release/1314/library/00LOCK-htmltools/00new/htmltools/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** 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 (htmltools) * installing *source* package 'tinytex' ... ** this is package 'tinytex' version '0.59' ** package 'tinytex' successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (tinytex) * installing *source* package 'xml2' ... ** this is package 'xml2' version '1.5.2' ** package 'xml2' successfully unpacked and MD5 sums checked ** using staged installation Found pkg-config cflags and libs! Using PKG_CFLAGS=-I/home/th798/.conda/envs/emacs1/include/libxml2 -I/home/th798/.conda/envs/emacs1/include Using PKG_LIBS=-L/home/th798/.conda/envs/emacs1/lib -lxml2 -L/home/th798/.conda/envs/emacs1/lib -lz -L/home/th798/.conda/envs/emacs1/lib -llzma -lpthread -L/home/th798/.conda/envs/emacs1/lib -L/home/th798/.conda/envs/emacs1/lib -licui18n -licuuc -licudata -lm -ldl ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' using C++ compiler: 'g++ (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include/libxml2 -I/home/th798/.conda/envs/emacs1/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c connection.cpp -o connection.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include/libxml2 -I/home/th798/.conda/envs/emacs1/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include/libxml2 -I/home/th798/.conda/envs/emacs1/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c xml2_doc.cpp -o xml2_doc.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include/libxml2 -I/home/th798/.conda/envs/emacs1/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c xml2_init.c -o xml2_init.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include/libxml2 -I/home/th798/.conda/envs/emacs1/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c xml2_namespace.cpp -o xml2_namespace.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include/libxml2 -I/home/th798/.conda/envs/emacs1/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c xml2_node.cpp -o xml2_node.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include/libxml2 -I/home/th798/.conda/envs/emacs1/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c xml2_output.cpp -o xml2_output.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include/libxml2 -I/home/th798/.conda/envs/emacs1/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c xml2_schema.cpp -o xml2_schema.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include/libxml2 -I/home/th798/.conda/envs/emacs1/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c xml2_url.cpp -o xml2_url.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-release/include" -DNDEBUG -I../inst/include -I/home/th798/.conda/envs/emacs1/include/libxml2 -I/home/th798/.conda/envs/emacs1/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c xml2_xpath.cpp -o xml2_xpath.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o xml2.so connection.o init.o xml2_doc.o xml2_init.o xml2_namespace.o xml2_node.o xml2_output.o xml2_schema.o xml2_url.o xml2_xpath.o -L/home/th798/.conda/envs/emacs1/lib -lxml2 -L/home/th798/.conda/envs/emacs1/lib -lz -L/home/th798/.conda/envs/emacs1/lib -llzma -lpthread -L/home/th798/.conda/envs/emacs1/lib -L/home/th798/.conda/envs/emacs1/lib -licui18n -licuuc -licudata -lm -ldl installing to /tmp/th798/30958541/R-release/1314/library/00LOCK-xml2/00new/xml2/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (xml2) * installing *source* package 'memoise' ... ** this is package 'memoise' version '2.0.1' ** package 'memoise' successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (memoise) * installing *source* package 'sass' ... ** this is package 'sass' version '0.4.10' ** package 'sass' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' using C++ compiler: 'g++ (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I./libsass/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c compile.c -o compile.o /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I"/home/th798/R/R-release/include" -DNDEBUG -I./libsass/include -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.cpp -o init.o MAKEFLAGS= CC="/packages/gcc/12.2.0-nnbserq/bin/gcc" CFLAGS="-I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include " CXX="/packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20" AR="ar" LDFLAGS="-L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64" make -C libsass make[1]: Entering directory '/tmp/th798/30958541/RtmpzpePVA/R.INSTALL1bc27ece53718/sass/src/libsass' /packages/gcc/12.2.0-nnbserq/bin/gcc -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -I ./include -fPIC -c -o src/cencode.o src/cencode.c /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/ast.o src/ast.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_values.o src/ast_values.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_supports.o src/ast_supports.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_sel_cmp.o src/ast_sel_cmp.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_sel_unify.o src/ast_sel_unify.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_sel_super.o src/ast_sel_super.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_sel_weave.o src/ast_sel_weave.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_selectors.o src/ast_selectors.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/context.o src/context.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/constants.o src/constants.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_utils.o src/fn_utils.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_miscs.o src/fn_miscs.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_maps.o src/fn_maps.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_lists.o src/fn_lists.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_colors.o src/fn_colors.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_numbers.o src/fn_numbers.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_strings.o src/fn_strings.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 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-I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/sass_context.o src/sass_context.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/sass_functions.o src/sass_functions.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/sass2scss.o src/sass2scss.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ 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src/ast2c.o src/ast2c.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/c2ast.o src/c2ast.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/to_value.o src/to_value.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/source_map.o src/source_map.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/error_handling.o src/error_handling.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/memory/allocator.o src/memory/allocator.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/memory/shared_ptr.o src/memory/shared_ptr.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/utf8_string.o src/utf8_string.cpp /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -O2 -std=c++11 -I ./include -fPIC -c -o src/base64vlq.o src/base64vlq.cpp mkdir lib ar rcvs lib/libsass.a src/cencode.o src/ast.o src/ast_values.o src/ast_supports.o src/ast_sel_cmp.o src/ast_sel_unify.o src/ast_sel_super.o src/ast_sel_weave.o src/ast_selectors.o src/context.o src/constants.o src/fn_utils.o src/fn_miscs.o src/fn_maps.o src/fn_lists.o src/fn_colors.o src/fn_numbers.o src/fn_strings.o src/fn_selectors.o src/color_maps.o src/environment.o src/ast_fwd_decl.o src/bind.o src/file.o src/util.o src/util_string.o src/json.o src/units.o src/values.o src/plugins.o src/source.o src/position.o src/lexer.o src/parser.o src/parser_selectors.o src/prelexer.o src/eval.o src/eval_selectors.o src/expand.o src/listize.o src/cssize.o src/extender.o src/extension.o src/stylesheet.o src/output.o src/inspect.o src/emitter.o src/check_nesting.o src/remove_placeholders.o src/sass.o src/sass_values.o src/sass_context.o src/sass_functions.o src/sass2scss.o src/backtrace.o src/operators.o src/ast2c.o src/c2ast.o src/to_value.o src/source_map.o src/error_handling.o src/memory/allocator.o src/memory/shared_ptr.o src/utf8_string.o src/base64vlq.o a - src/cencode.o a - src/ast.o a - src/ast_values.o a - src/ast_supports.o a - src/ast_sel_cmp.o a - src/ast_sel_unify.o a - src/ast_sel_super.o a - src/ast_sel_weave.o a - src/ast_selectors.o a - src/context.o a - src/constants.o a - src/fn_utils.o a - src/fn_miscs.o a - src/fn_maps.o a - src/fn_lists.o a - src/fn_colors.o a - src/fn_numbers.o a - src/fn_strings.o a - src/fn_selectors.o a - src/color_maps.o a - src/environment.o a - src/ast_fwd_decl.o a - src/bind.o a - src/file.o a - src/util.o a - src/util_string.o a - src/json.o a - src/units.o a - src/values.o a - src/plugins.o a - src/source.o a - src/position.o a - src/lexer.o a - src/parser.o a - src/parser_selectors.o a - src/prelexer.o a - src/eval.o a - src/eval_selectors.o a - src/expand.o a - src/listize.o a - src/cssize.o a - src/extender.o a - src/extension.o a - src/stylesheet.o a - src/output.o a - src/inspect.o a - src/emitter.o a - src/check_nesting.o a - src/remove_placeholders.o a - src/sass.o a - src/sass_values.o a - src/sass_context.o a - src/sass_functions.o a - src/sass2scss.o a - src/backtrace.o a - src/operators.o a - src/ast2c.o a - src/c2ast.o a - src/to_value.o a - src/source_map.o a - src/error_handling.o a - src/memory/allocator.o a - src/memory/shared_ptr.o a - src/utf8_string.o a - src/base64vlq.o make[1]: Leaving directory '/tmp/th798/30958541/RtmpzpePVA/R.INSTALL1bc27ece53718/sass/src/libsass' /packages/gcc/12.2.0-nnbserq/bin/g++ -std=gnu++20 -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o sass.so compile.o init.o ./libsass/lib/libsass.a rm -f libsass/lib/libsass.a installing to /tmp/th798/30958541/R-release/1314/library/00LOCK-sass/00new/sass/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (sass) * installing *source* package 'fontawesome' ... ** this is package 'fontawesome' version '0.5.3' ** package 'fontawesome' successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (fontawesome) * installing *source* package 'jquerylib' ... ** this is package 'jquerylib' version '0.1.4' ** package 'jquerylib' successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (jquerylib) * installing *source* package 'knitr' ... ** this is package 'knitr' version '1.51' ** package 'knitr' successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (knitr) * installing *source* package 'restatapi' ... ** this is package 'restatapi' version '0.25.0' ** package 'restatapi' successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (restatapi) * installing *source* package 'bslib' ... ** this is package 'bslib' version '0.10.0' ** package 'bslib' successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (bslib) * installing *source* package 'rmarkdown' ... ** this is package 'rmarkdown' version '2.31' ** package 'rmarkdown' successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (rmarkdown) > cat("Time to install revdep:\n") Time to install revdep: > print(install.time) user system elapsed 226.459 17.346 254.648 > print(Sys.time()) [1] "2026-08-16 05:05:21 MST" > (pkg_Version.tar.gz <- paste0(rev.dep,"_", deps.row[,"Version"], ".tar.gz")) [1] "restatapi_0.25.0.tar.gz" > (pkg.tar.gz <- file.path(local.CRAN, "src", "contrib", pkg_Version.tar.gz)) [1] "/projects/genomic-ml/CRAN/src/contrib/restatapi_0.25.0.tar.gz" > (rev.dep.release.tar.gz <- normalizePath(pkg.tar.gz, mustWork=TRUE)) [1] "/projects/genomic-ml/CRAN/src/contrib/restatapi_0.25.0.tar.gz" > pkg.Rcheck <- paste0(rev.dep, ".Rcheck") > > proj.dir <- "~/genomic-ml/data.table-revdeps" > source(file.path(proj.dir, "myStatus.R")) > Rvers <- gsub("[()]", "", gsub(" ", "_", R.version[["version.string"]])) > dir.create(Rvers, showWarnings=FALSE) > Rcheck.list <- list() > for(dt.version.short in c("release", "master")){ + dt.tar.gz <- cargs[[dt.version.short]] + dt.version <- gsub(".tar.gz|/.*?_", "", dt.tar.gz) + print(Sys.time()) + install.packages(dt.tar.gz, repos=NULL) + print(Sys.time()) + check.cmd <- get_check_cmd(rev.dep.release.tar.gz) + system(check.cmd) + print(Sys.time()) + dest.Rcheck <- file.path( + Rvers, + paste0(dt.version, ".Rcheck")) + unlink(dest.Rcheck, recursive=TRUE) + file.rename(pkg.Rcheck, dest.Rcheck) + Rcheck.list[[dt.version]] <- file.path(dest.Rcheck, "00check.log") + } [1] "2026-08-16 05:05:21 MST" Installing package into '/tmp/th798/30958541/R-release/1314/library' (as 'lib' is unspecified) * installing *source* package 'data.table' ... ** this is package 'data.table' version '1.18.4' ** package 'data.table' successfully unpacked and MD5 sums checked ** using staged installation zlib 1.2.13 is available ok * checking if R installation supports OpenMP without any extra hints... yes ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c assign.c -o assign.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c between.c -o between.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c bmerge.c -o bmerge.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c chmatch.c -o chmatch.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c cj.c -o cj.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c coalesce.c -o coalesce.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c dogroups.c -o dogroups.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fastmean.c -o fastmean.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fcast.c -o fcast.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fifelse.c -o fifelse.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fmelt.c -o fmelt.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c forder.c -o forder.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c frank.c -o frank.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fread.c -o fread.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c freadR.c -o freadR.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c froll.c -o froll.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c frollR.c -o frollR.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c frolladaptive.c -o frolladaptive.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c frollapply.c -o frollapply.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fsort.c -o fsort.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fwrite.c -o fwrite.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fwriteR.c -o fwriteR.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c gsumm.c -o gsumm.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c hash.c -o hash.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c idatetime.c -o idatetime.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c ijoin.c -o ijoin.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c inrange.c -o inrange.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c mergelist.c -o mergelist.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c nafill.c -o nafill.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c negate.c -o negate.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c nqrecreateindices.c -o nqrecreateindices.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c openmp-utils.c -o openmp-utils.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c programming.c -o programming.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c quickselect.c -o quickselect.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c rbindlist.c -o rbindlist.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c reorder.c -o reorder.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c shellsort.c -o shellsort.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c shift.c -o shift.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c snprintf.c -o snprintf.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c subset.c -o subset.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c transpose.c -o transpose.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c types.c -o types.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c uniqlist.c -o uniqlist.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c utils.c -o utils.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c vecseq.c -o vecseq.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c wrappers.c -o wrappers.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o data.table.so assign.o between.o bmerge.o chmatch.o cj.o coalesce.o dogroups.o fastmean.o fcast.o fifelse.o fmelt.o forder.o frank.o fread.o freadR.o froll.o frollR.o frolladaptive.o frollapply.o fsort.o fwrite.o fwriteR.o gsumm.o hash.o idatetime.o ijoin.o init.o inrange.o mergelist.o nafill.o negate.o nqrecreateindices.o openmp-utils.o programming.o quickselect.o rbindlist.o reorder.o shellsort.o shift.o snprintf.o subset.o transpose.o types.o uniqlist.o utils.o vecseq.o wrappers.o -fvisibility=hidden -fopenmp -L/home/th798/.conda/envs/emacs1/lib -lz PKG_CFLAGS = -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include PKG_LIBS = -fvisibility=hidden -fopenmp -L/home/th798/.conda/envs/emacs1/lib -lz if [ "data.table.so" != "data_table.so" ]; then mv data.table.so data_table.so; fi if [ "" != "Windows_NT" ] && [ `uname -s` = 'Darwin' ]; then install_name_tool -id data_table.so data_table.so; fi installing to /tmp/th798/30958541/R-release/1314/library/00LOCK-data.table/00new/data.table/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (data.table) [1] "2026-08-16 05:05:41 MST" * using log directory '/tmp/th798/30958541/R-release/1314/restatapi.Rcheck' * using R version 4.6.1 (2026-06-24) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Spack GCC) 12.2.0 GNU Fortran (Spack GCC) 12.2.0 * running under: Red Hat Enterprise Linux 8.10 (Ootpa) * using session charset: ASCII * current time: 2026-08-16 12:05:42 UTC * checking for file 'restatapi/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'restatapi' version '0.25.0' * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package 'restatapi' can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking code files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking loading without being on the library search path ... OK * checking whether startup messages can be suppressed ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking examples ... OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... Running 'tinytest.R' OK * checking PDF version of manual ... OK * DONE Status: OK [1] "2026-08-16 05:09:25 MST" [1] "2026-08-16 05:09:25 MST" Installing package into '/tmp/th798/30958541/R-release/1314/library' (as 'lib' is unspecified) * installing *source* package 'data.table' ... ** this is package 'data.table' version '1.18.99' ** using staged installation zlib 1.2.13 is available ok * checking if OpenMP works with CFLAGS='' LIBS=''... no * checking if OpenMP works with CFLAGS='$(SHLIB_OPENMP_CFLAGS)' LIBS='$(SHLIB_OPENMP_CFLAGS)'... yes ** libs using C compiler: 'gcc (Spack GCC) 12.2.0' /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c assign.c -o assign.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c between.c -o between.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c bmerge.c -o bmerge.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c chmatch.c -o chmatch.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c cj.c -o cj.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c coalesce.c -o coalesce.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c deleterows.c -o deleterows.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c dogroups.c -o dogroups.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fastmean.c -o fastmean.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fcast.c -o fcast.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fifelse.c -o fifelse.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fmelt.c -o fmelt.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c forder.c -o forder.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c frank.c -o frank.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fread.c -o fread.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c freadR.c -o freadR.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c froll.c -o froll.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c frollR.c -o frollR.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c frolladaptive.c -o frolladaptive.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c frollapply.c -o frollapply.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fsort.c -o fsort.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fwrite.c -o fwrite.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c fwriteR.c -o fwriteR.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c gsumm.c -o gsumm.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c hash.c -o hash.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c idatetime.c -o idatetime.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c ijoin.c -o ijoin.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c init.c -o init.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c inrange.c -o inrange.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c mergelist.c -o mergelist.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c nafill.c -o nafill.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c negate.c -o negate.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c nqrecreateindices.c -o nqrecreateindices.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c openmp-utils.c -o openmp-utils.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c programming.c -o programming.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c quickselect.c -o quickselect.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c rbindlist.c -o rbindlist.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c reorder.c -o reorder.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c shellsort.c -o shellsort.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c shift.c -o shift.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c snprintf.c -o snprintf.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c subset.c -o subset.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c transpose.c -o transpose.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c types.c -o types.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c uniqlist.c -o uniqlist.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c utils.c -o utils.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c vecseq.c -o vecseq.o /packages/gcc/12.2.0-nnbserq/bin/gcc -I"/home/th798/R/R-release/include" -DNDEBUG -I/home/th798/.conda/envs/emacs1/include -I/home/th798/include -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include -fpic -I/packages/gcc/12.2.0-nnbserq/include -I/packages/zstd/1.5.2-cs5ansz/include -I/packages/zlib/1.2.13-po6bkge/include -I/packages/mpc/1.2.1-nnfoiwh/include -I/packages/mpfr/4.1.0-yfsqqka/include -I/packages/gmp/6.2.1-7ydtie6/include -c wrappers.c -o wrappers.o /packages/gcc/12.2.0-nnbserq/bin/gcc -shared -L/home/th798/.conda/envs/emacs1/lib -Wl,-rpath=/home/th798/.conda/envs/emacs1/lib -L/home/th798/lib -Wl,-rpath=/home/th798/lib -L/home/th798/lib64 -Wl,-rpath=/home/th798/lib64 -o data.table.so assign.o between.o bmerge.o chmatch.o cj.o coalesce.o deleterows.o dogroups.o fastmean.o fcast.o fifelse.o fmelt.o forder.o frank.o fread.o freadR.o froll.o frollR.o frolladaptive.o frollapply.o fsort.o fwrite.o fwriteR.o gsumm.o hash.o idatetime.o ijoin.o init.o inrange.o mergelist.o nafill.o negate.o nqrecreateindices.o openmp-utils.o programming.o quickselect.o rbindlist.o reorder.o shellsort.o shift.o snprintf.o subset.o transpose.o types.o uniqlist.o utils.o vecseq.o wrappers.o -fvisibility=hidden -fopenmp -L/home/th798/.conda/envs/emacs1/lib -lz PKG_CFLAGS = -fvisibility=hidden -fopenmp -I/home/th798/.conda/envs/emacs1/include PKG_LIBS = -fvisibility=hidden -fopenmp -L/home/th798/.conda/envs/emacs1/lib -lz installing to /tmp/th798/30958541/R-release/1314/library/00LOCK-data.table/00new/data.table/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (data.table) [1] "2026-08-16 05:09:47 MST" * using log directory '/tmp/th798/30958541/R-release/1314/restatapi.Rcheck' * using R version 4.6.1 (2026-06-24) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Spack GCC) 12.2.0 GNU Fortran (Spack GCC) 12.2.0 * running under: Red Hat Enterprise Linux 8.10 (Ootpa) * using session charset: ASCII * current time: 2026-08-16 12:09:47 UTC * checking for file 'restatapi/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'restatapi' version '0.25.0' * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package 'restatapi' can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking code files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking loading without being on the library search path ... OK * checking whether startup messages can be suppressed ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking examples ... OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... Running 'tinytest.R' OK * checking PDF version of manual ... OK * DONE Status: OK [1] "2026-08-16 05:13:34 MST" > system(paste(c("diff -u", Rcheck.list), collapse=" ")) --- R_version_4.6.1_2026-06-24/release_1.18.4.Rcheck/00check.log 2026-08-16 05:09:25.261448667 -0700 +++ R_version_4.6.1_2026-06-24/master_1.18.99.813ed951c5bac35d0d31626cc7ab7e3192aec9f6.Rcheck/00check.log 2026-08-16 05:13:34.828060176 -0700 @@ -6,7 +6,7 @@ GNU Fortran (Spack GCC) 12.2.0 * running under: Red Hat Enterprise Linux 8.10 (Ootpa) * using session charset: ASCII -* current time: 2026-08-16 12:05:42 UTC +* current time: 2026-08-16 12:09:47 UTC * checking for file 'restatapi/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'restatapi' version '0.25.0' > library(data.table, lib.loc=R.home("library")) Attaching package: 'data.table' The following object is masked from 'package:base': %notin% > (sig.diff.dt <- myDiff(Rvers)) Key: Empty data.table (0 rows and 3 cols): checking,master,release > > ## If there are significant differences, use git bisect to find when > ## they started. > if(nrow(sig.diff.dt)){ + dt.git <- file.path(task.dir, "data.table.git") + unlink(dt.git, recursive=TRUE, force=TRUE) + system(paste("cd ~/R/data.table && git fetch --tags")) + system(paste("git clone ~/R/data.table", dt.git)) + release.tag <- gsub(".tar.gz|.*_", "", cargs[["release"]]) + rev.parse.cmd <- paste( + "cd", dt.git, "&& git rev-parse master") + master.sha <- system(rev.parse.cmd, intern=TRUE) + merge.base.cmd <- paste( + "cd", dt.git, "&& git merge-base master", release.tag) + merge.base.sha <- system(merge.base.cmd, intern=TRUE) + old.sha <- merge.base.sha + run_R <- file.path(proj.dir, "install_dt_then_check_dep.R") + sig.diff.dt[, first.bad.commit := NA_character_] + sig.diff.dt[, comments := NA_character_] + for(diff.i in 1:nrow(sig.diff.dt)){ + sig.diff.row <- sig.diff.dt[diff.i] + bisect.cmd <- paste( + "cd", dt.git, "&&", + "git bisect start &&", + "git bisect old", old.sha, "&&", + "git bisect new master &&", + "git bisect run", + R.home('bin/Rscript'), + run_R, + shQuote(sig.diff.row$checking), + sig.diff.row$release, + rev.dep.release.tar.gz, + release.tag) + print(bisect.cmd) + bisect.out <- system(bisect.cmd, intern=TRUE) + cat(bisect.out,sep="\n") + if(is.null(attr(bisect.out,"status"))){ + first.bad.sha <- nc::capture_all_str( + bisect.out, + sha="[0-9a-f]+", + " is the first new commit")$sha + parent.cmd <- paste( + "cd ~/R/data.table && git log --pretty=%P -n 1", + first.bad.sha) + parent.sha <- system(parent.cmd, intern=TRUE) + sig.diff.dt[diff.i, first.bad.commit := first.bad.sha] + parent.msg <- paste0("parent=", parent.sha) + this.comment <- if(parent.sha==old.sha){ + paste(parent.msg, "same as git bisect old") + }else if(first.bad.sha==master.sha){ + paste("same as git bisect new=master,", parent.msg) + }else{ + parent.msg + } + sig.diff.dt[diff.i, comments := this.comment] + } + } + ## add CRAN column. + sig.diff.dt[, CRAN := { + flavor <- get_flavor(Rvers) + details <- data.table(flavor=unique(flavor))[, { + base <- "https://www.r-project.org/nosvn/R.check/" + u <- paste0(base, flavor, "/", rev.dep, "-00check.txt") + check.txt <- tempfile() + tryCatch({ + download.file(u, check.txt, quiet=TRUE) + }, error=function(e){ + NULL + }) + check.lines <- if(file.exists(check.txt)){ + readLines(check.txt,encoding="UTF-8") + }else{ + "" + } + repl.lines <- gsub("[\u2018\u2019]", "'", check.lines) + ##gsub("[‘’]", "'", check.lines) does not work with LC_ALL=C. + myStatus(line.vec=repl.lines) + }, by=flavor] + select.dt <- data.table(flavor, checking) + details[select.dt, msg, on=.(flavor, checking)] + }] + dir.create(file.path(job.dir, Rvers)) + diffs.csv <- file.path(job.dir, Rvers, "significant_differences.csv") + data.table::fwrite(sig.diff.dt, diffs.csv) + print(sig.diff.dt) + } >