Original Message:
Sent: Mon November 11, 2024 04:50 AM
From: Vincencio Michaelis
Subject: Got R Abend on AIX - how to handle this here or in a PMR Case ?
Hi
solved is the wrong word.....it is running but with a very old version for data.table so this cannot be the solution because it is too old. we need to find out why on all later releases this doestn work anymore. maybe you can contact mich ael quaranta for clariication please ? we cannot stay forwever on very old software level also for security reason
thx
vince
------------------------------
Vincencio Michaelis
Original Message:
Sent: Mon November 11, 2024 03:59 AM
From: Ayappan P
Subject: Got R Abend on AIX - how to handle this here or in a PMR Case ?
The issue is resolved now ?
------------------------------
Ayappan P
Original Message:
Sent: Sun November 10, 2024 05:33 AM
From: Vincencio Michaelis
Subject: Got R Abend on AIX - how to handle this here or in a PMR Case ?
Hello Axappan P
after a talk to Michael Quarantas he tol me to downgrade he wrote me this:
OK – well 1.16.2 introduced this new error, reverting to 1.15 via
install.packages(https://cran.r-project.org/src/contrib/Archive/data.table/data.table_1.15.4.tar.gz)
fixed it for another customer. So I'd let support know this new error popped up (are you working with Ayappan?)
------------------------------
Vincencio Michaelis
Original Message:
Sent: Tue November 05, 2024 04:38 AM
From: Ayappan P
Subject: Got R Abend on AIX - how to handle this here or in a PMR Case ?
The data.table installed is 1.14.4 which is little old. I can see some fixes went into recent versions related to these errors.
You can download the recent data.table source tar file from "https://cran.r-project.org/src/contrib/data.table_1.16.2.tar.gz" , copy to the lpar and run "R CMD INSTALL data.table_1.16.2.tar.gz"
------------------------------
Ayappan P
Original Message:
Sent: Tue November 05, 2024 04:30 AM
From: Vincencio Michaelis
Subject: Got R Abend on AIX - how to handle this here or in a PMR Case ?
i have no internet connection from this machine....maybe i need to download store on disk and update from lpar filesystem ??? If yo can you help me here pls ?
root@rb3zf01(Si):/cpt/logs $ R
R version 4.3.2 (2023-10-31) -- "Eye Holes"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: powerpc-ibm-aix7.3.2.0 (64-bit)
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.
Natural language support but running in an English locale
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.
> installed.packages()
Package LibPath Version
KernSmooth "KernSmooth" "/opt/freeware/lib64/R/library" "2.23-22"
MASS "MASS" "/opt/freeware/lib64/R/library" "7.3-60"
Matrix "Matrix" "/opt/freeware/lib64/R/library" "1.6-1.1"
R6 "R6" "/opt/freeware/lib64/R/library" "2.5.1"
RColorBrewer "RColorBrewer" "/opt/freeware/lib64/R/library" "1.1-3"
Rcpp "Rcpp" "/opt/freeware/lib64/R/library" "1.0.9"
assertthat "assertthat" "/opt/freeware/lib64/R/library" "0.2.1"
base "base" "/opt/freeware/lib64/R/library" "4.3.2"
boot "boot" "/opt/freeware/lib64/R/library" "1.3-28.1"
chron "chron" "/opt/freeware/lib64/R/library" "2.3-58"
class "class" "/opt/freeware/lib64/R/library" "7.3-22"
cli "cli" "/opt/freeware/lib64/R/library" "3.6.0"
cluster "cluster" "/opt/freeware/lib64/R/library" "2.1.4"
codetools "codetools" "/opt/freeware/lib64/R/library" "0.2-19"
colorspace "colorspace" "/opt/freeware/lib64/R/library" "2.0-3"
compiler "compiler" "/opt/freeware/lib64/R/library" "4.3.2"
crayon "crayon" "/opt/freeware/lib64/R/library" "1.3.4"
data.table "data.table" "/opt/freeware/lib64/R/library" "1.14.4"
datasets "datasets" "/opt/freeware/lib64/R/library" "4.3.2"
dichromat "dichromat" "/opt/freeware/lib64/R/library" "2.0-0.1"
digest "digest" "/opt/freeware/lib64/R/library" "0.6.30"
fansi "fansi" "/opt/freeware/lib64/R/library" "1.0.3"
farver "farver" "/opt/freeware/lib64/R/library" "2.1.1"
foreign "foreign" "/opt/freeware/lib64/R/library" "0.8-85"
ggplot2 "ggplot2" "/opt/freeware/lib64/R/library" "3.4.0"
glue "glue" "/opt/freeware/lib64/R/library" "1.6.2"
grDevices "grDevices" "/opt/freeware/lib64/R/library" "4.3.2"
graphics "graphics" "/opt/freeware/lib64/R/library" "4.3.2"
grid "grid" "/opt/freeware/lib64/R/library" "4.3.2"
gtable "gtable" "/opt/freeware/lib64/R/library" "0.3.1"
isoband "isoband" "/opt/freeware/lib64/R/library" "0.2.6"
labeling "labeling" "/opt/freeware/lib64/R/library" "0.4.2"
lattice "lattice" "/opt/freeware/lib64/R/library" "0.21-9"
lazyeval "lazyeval" "/opt/freeware/lib64/R/library" "0.2.2"
lifecycle "lifecycle" "/opt/freeware/lib64/R/library" "1.0.3"
magrittr "magrittr" "/opt/freeware/lib64/R/library" "2.0.3"
methods "methods" "/opt/freeware/lib64/R/library" "4.3.2"
mgcv "mgcv" "/opt/freeware/lib64/R/library" "1.9-0"
munsell "munsell" "/opt/freeware/lib64/R/library" "0.5.0"
nlme "nlme" "/opt/freeware/lib64/R/library" "3.1-163"
nnet "nnet" "/opt/freeware/lib64/R/library" "7.3-19"
parallel "parallel" "/opt/freeware/lib64/R/library" "4.3.2"
pillar "pillar" "/opt/freeware/lib64/R/library" "1.8.1"
pkgconfig "pkgconfig" "/opt/freeware/lib64/R/library" "2.0.3"
plyr "plyr" "/opt/freeware/lib64/R/library" "1.8.8"
proto "proto" "/opt/freeware/lib64/R/library" "1.0.0"
reshape2 "reshape2" "/opt/freeware/lib64/R/library" "1.4.3"
rlang "rlang" "/opt/freeware/lib64/R/library" "1.0.6"
rpart "rpart" "/opt/freeware/lib64/R/library" "4.1.21"
scales "scales" "/opt/freeware/lib64/R/library" "1.2.1"
spatial "spatial" "/opt/freeware/lib64/R/library" "7.3-17"
splines "splines" "/opt/freeware/lib64/R/library" "4.3.2"
stats "stats" "/opt/freeware/lib64/R/library" "4.3.2"
stats4 "stats4" "/opt/freeware/lib64/R/library" "4.3.2"
stringi "stringi" "/opt/freeware/lib64/R/library" "1.4.3"
stringr "stringr" "/opt/freeware/lib64/R/library" "1.4.0"
survival "survival" "/opt/freeware/lib64/R/library" "3.5-7"
tcltk "tcltk" "/opt/freeware/lib64/R/library" "4.3.2"
tibble "tibble" "/opt/freeware/lib64/R/library" "3.1.8"
tools "tools" "/opt/freeware/lib64/R/library" "4.3.2"
utf8 "utf8" "/opt/freeware/lib64/R/library" "1.2.2"
utils "utils" "/opt/freeware/lib64/R/library" "4.3.2"
vctrs "vctrs" "/opt/freeware/lib64/R/library" "0.5.1"
viridisLite "viridisLite" "/opt/freeware/lib64/R/library" "0.3.0"
withr "withr" "/opt/freeware/lib64/R/library" "2.5.0"
Priority Depends
KernSmooth "recommended" "R (>= 2.5.0), stats"
MASS "recommended" "R (>= 4.0), grDevices, graphics, stats, utils"
Matrix "recommended" "R (>= 3.5.0), methods"
R6 NA "R (>= 3.0)"
RColorBrewer NA "R (>= 2.0.0)"
Rcpp NA NA
assertthat NA NA
base "base" NA
boot "recommended" "R (>= 3.0.0), graphics, stats"
chron NA "R (>= 2.12.0)"
class "recommended" "R (>= 3.0.0), stats, utils"
cli NA "R (>= 3.4)"
cluster "recommended" "R (>= 3.5.0)"
codetools "recommended" "R (>= 2.1)"
colorspace NA "R (>= 3.0.0), methods"
compiler "base" NA
crayon NA NA
data.table NA "R (>= 3.1.0)"
datasets "base" NA
dichromat NA "R (>= 2.10), stats"
digest NA "R (>= 3.3.0)"
fansi NA "R (>= 3.1.0)"
farver NA NA
foreign "recommended" "R (>= 4.0.0)"
ggplot2 NA "R (>= 3.3)"
glue NA "R (>= 3.4)"
grDevices "base" NA
graphics "base" NA
grid "base" NA
gtable NA "R (>= 3.0)"
isoband NA NA
labeling NA NA
lattice "recommended" "R (>= 4.0.0)"
lazyeval NA "R (>= 3.1.0)"
lifecycle NA "R (>= 3.4)"
magrittr NA "R (>= 3.4.0)"
methods "base" NA
mgcv "recommended" "R (>= 3.6.0), nlme (>= 3.1-64)"
munsell NA NA
nlme "recommended" "R (>= 3.5.0)"
nnet "recommended" "R (>= 3.0.0), stats, utils"
parallel "base" NA
pillar NA NA
pkgconfig NA NA
plyr NA "R (>= 3.1.0)"
proto NA NA
reshape2 NA "R (>= 3.1)"
rlang NA "R (>= 3.4.0)"
rpart "recommended" "R (>= 2.15.0), graphics, stats, grDevices"
scales NA "R (>= 3.2)"
spatial "recommended" "R (>= 3.0.0), graphics, stats, utils"
splines "base" NA
stats "base" NA
stats4 "base" NA
stringi NA "R (>= 2.14)"
stringr NA "R (>= 3.1)"
survival "recommended" "R (>= 3.5.0)"
tcltk "base" NA
tibble NA "R (>= 3.1.0)"
tools "base" NA
utf8 NA "R (>= 2.10)"
utils "base" NA
vctrs NA "R (>= 3.3)"
viridisLite NA "R (>= 2.10)"
withr NA "R (>= 3.2.0)"
Imports
KernSmooth NA
MASS "methods"
Matrix "grDevices, graphics, grid, lattice, stats, utils"
R6 NA
RColorBrewer NA
Rcpp "methods, utils"
assertthat "tools"
base NA
boot NA
chron "graphics, stats"
class "MASS"
cli "utils"
cluster "graphics, grDevices, stats, utils"
codetools NA
colorspace "graphics, grDevices, stats"
compiler NA
crayon "grDevices, methods, utils"
data.table "methods"
datasets NA
dichromat NA
digest "utils"
fansi "grDevices, utils"
farver NA
foreign "methods, utils, stats"
ggplot2 "cli, glue, grDevices, grid, gtable (>= 0.1.1), isoband,\nlifecycle (> 1.0.1), MASS, mgcv, rlang (>= 1.0.0), scales (>=\n1.2.0), stats, tibble, vctrs (>= 0.5.0), withr (>= 2.5.0)"
glue "methods"
grDevices NA
graphics "grDevices"
grid "grDevices, utils"
gtable "grid"
isoband "grid, utils"
labeling "stats, graphics"
lattice "grid, grDevices, graphics, stats, utils"
lazyeval NA
lifecycle "cli (>= 3.4.0), glue, rlang (>= 1.0.6)"
magrittr NA
methods "utils, stats"
mgcv "methods, stats, graphics, Matrix, splines, utils"
munsell "colorspace, methods"
nlme "graphics, stats, utils, lattice"
nnet NA
parallel "tools, compiler"
pillar "cli (>= 2.3.0), fansi, glue, lifecycle, rlang (>= 1.0.2), utf8\n(>= 1.1.0), utils, vctrs (>= 0.3.8)"
pkgconfig "utils"
plyr "Rcpp (>= 0.11.0)"
proto NA
reshape2 "plyr (>= 1.8.1), Rcpp, stringr"
rlang "utils"
rpart NA
scales "farver (>= 2.0.3), labeling, lifecycle, munsell (>= 0.5), R6,\nRColorBrewer, rlang (>= 1.0.0), viridisLite"
spatial NA
splines "graphics, stats"
stats "utils, grDevices, graphics"
stats4 "graphics, methods, stats"
stringi "tools, utils, stats"
stringr "glue (>= 1.2.0), magrittr, stringi (>= 1.1.7)"
survival "graphics, Matrix, methods, splines, stats, utils"
tcltk "utils"
tibble "fansi (>= 0.4.0), lifecycle (>= 1.0.0), magrittr, methods,\npillar (>= 1.7.0), pkgconfig, rlang (>= 1.0.2), utils, vctrs\n(>= 0.3.8)"
tools NA
utf8 NA
utils NA
vctrs "cli (>= 3.4.0), glue, lifecycle (>= 1.0.3), rlang (>= 1.0.6)"
viridisLite NA
withr "graphics, grDevices, stats"
LinkingTo
KernSmooth NA
MASS NA
Matrix NA
R6 NA
RColorBrewer NA
Rcpp NA
assertthat NA
base NA
boot NA
chron NA
class NA
cli NA
cluster NA
codetools NA
colorspace NA
compiler NA
crayon NA
data.table NA
datasets NA
dichromat NA
digest NA
fansi NA
farver NA
foreign NA
ggplot2 NA
glue NA
grDevices NA
graphics NA
grid NA
gtable NA
isoband NA
labeling NA
lattice NA
lazyeval NA
lifecycle NA
magrittr NA
methods NA
mgcv NA
munsell NA
nlme NA
nnet NA
parallel NA
pillar NA
pkgconfig NA
plyr "Rcpp"
proto NA
reshape2 "Rcpp"
rlang NA
rpart NA
scales NA
spatial NA
splines NA
stats NA
stats4 NA
stringi NA
stringr NA
survival NA
tcltk NA
tibble NA
tools NA
utf8 NA
utils NA
vctrs NA
viridisLite NA
withr NA
Suggests
KernSmooth "MASS, carData"
MASS "lattice, nlme, nnet, survival"
Matrix "MASS, datasets, sfsmisc"
R6 "testthat, pryr"
RColorBrewer NA
Rcpp "tinytest, inline, rbenchmark, pkgKitten (>= 0.1.2)"
assertthat "testthat, covr"
base "methods"
boot "MASS, survival"
chron "scales, ggplot2"
class NA
cli "callr, covr, crayon, digest, glue (>= 1.6.0), grDevices,\nhtmltools, htmlwidgets, knitr, methods, mockery, processx, ps\n(>= 1.3.4.9000), rlang (>= 1.0.2.9003), rmarkdown, rprojroot,\nrstudioapi, testthat, tibble, whoami, withr"
cluster "MASS, Matrix"
codetools NA
colorspace "datasets, utils, KernSmooth, MASS, kernlab, mvtnorm, vcd,\ntcltk, shiny, shinyjs, ggplot2, dplyr, scales, grid, png, jpeg,\nknitr, rmarkdown, RColorBrewer, rcartocolor, scico, viridis,\nwesanderson"
compiler NA
crayon "mockery, rstudioapi, testthat, withr"
data.table "bit64 (>= 4.0.0), bit (>= 4.0.4), curl, R.utils, xts,\nnanotime, zoo (>= 1.8-1), yaml, knitr, rmarkdown"
datasets NA
dichromat NA
digest "tinytest, simplermarkdown"
fansi "unitizer, knitr, rmarkdown"
farver "covr, testthat (>= 3.0.0)"
foreign NA
ggplot2 "covr, dplyr, ggplot2movies, hexbin, Hmisc, knitr, lattice,\nmapproj, maps, maptools, multcomp, munsell, nlme, profvis,\nquantreg, ragg, RColorBrewer, rgeos, rmarkdown, rpart, sf (>=\n0.7-3), svglite (>= 1.2.0.9001), testthat (>= 3.1.2), vdiffr\n(>= 1.0.0), xml2"
glue "covr, crayon, DBI, dplyr, forcats, ggplot2, knitr, magrittr,\nmicrobenchmark, R.utils, rmarkdown, rprintf, RSQLite, stringr,\ntestthat (>= 3.0.0), vctrs (>= 0.3.0), waldo (>= 0.3.0), withr"
grDevices "KernSmooth"
graphics NA
grid NA
gtable "covr, testthat, knitr, rmarkdown, ggplot2, profvis"
isoband "covr, ggplot2, knitr, magick, microbenchmark, rmarkdown, sf,\ntestthat, xml2"
labeling NA
lattice "KernSmooth, MASS, latticeExtra, colorspace"
lazyeval "knitr, rmarkdown (>= 0.2.65), testthat, covr"
lifecycle "covr, crayon, knitr, lintr, rmarkdown, testthat (>= 3.0.1),\ntibble, tidyverse, tools, vctrs, withr"
magrittr "covr, knitr, rlang, rmarkdown, testthat"
methods "codetools"
mgcv "parallel, survival, MASS"
munsell "ggplot2, testthat"
nlme "Hmisc, MASS, SASmixed"
nnet "MASS"
parallel "methods"
pillar "bit64, debugme, DiagrammeR, dplyr, formattable, ggplot2,\nknitr, lubridate, nanotime, nycflights13, palmerpenguins,\nrmarkdown, scales, stringi, survival, testthat (>= 3.1.1),\ntibble, units (>= 0.7.2), vdiffr, withr"
pkgconfig "covr, testthat, disposables (>= 1.0.3)"
plyr "abind, covr, doParallel, foreach, iterators, itertools,\ntcltk, testthat"
proto "testthat, covr"
reshape2 "covr, lattice, testthat (>= 0.8.0)"
rlang "cli (>= 3.1.0), covr, crayon, fs, glue, knitr, magrittr,\nmethods, pillar, rmarkdown, stats, testthat (>= 3.0.0), tibble,\nusethis, vctrs (>= 0.2.3), withr"
rpart "survival"
scales "bit64, covr, dichromat, ggplot2, hms (>= 0.5.0), stringi,\ntestthat (>= 3.0.0), waldo (>= 0.4.0)"
spatial "MASS"
splines "Matrix, methods"
stats "MASS, Matrix, SuppDists, methods, stats4"
stats4 NA
stringi NA
stringr "covr, htmltools, htmlwidgets, knitr, rmarkdown, testthat"
survival NA
tcltk NA
tibble "bench, bit64, blob, brio, callr, cli, covr, crayon (>=\n1.3.4), DiagrammeR, dplyr, evaluate, formattable, ggplot2, hms,\nhtmltools, knitr, lubridate, mockr, nycflights13, pkgbuild,\npkgload, purrr, rmarkdown, stringi, testthat (>= 3.0.2), tidyr,\nwithr"
tools "codetools, methods, xml2, curl, commonmark, knitr, xfun, mathjaxr, V8"
utf8 "cli, covr, knitr, rlang, rmarkdown, testthat (>= 3.0.0),\nwithr"
utils "methods, xml2, commonmark, knitr"
vctrs "bit64, covr, crayon, dplyr (>= 0.8.5), generics, knitr,\npillar (>= 1.4.4), pkgdown (>= 2.0.1), rmarkdown, testthat (>=\n3.0.0), tibble (>= 3.1.3), withr, xml2, waldo (>= 0.2.0),\nzeallot"
viridisLite "hexbin (>= 1.27.0), ggplot2 (>= 1.0.1), testthat, covr"
withr "callr, covr, DBI, knitr, lattice, methods, rlang, rmarkdown\n(>= 2.12), RSQLite, testthat (>= 3.0.0)"
Enhances License
KernSmooth NA "Unlimited"
MASS NA "GPL-2 | GPL-3"
Matrix "SparseM, graph" "GPL (>= 2) | file LICENCE"
R6 NA "MIT + file LICENSE"
RColorBrewer NA "Apache License 2.0"
Rcpp NA "GPL (>= 2)"
assertthat NA "GPL-3"
base NA "Part of R 4.3.2"
boot NA "Unlimited"
chron "zoo" "GPL-2"
class NA "GPL-2 | GPL-3"
cli NA "MIT + file LICENSE"
cluster NA "GPL (>= 2)"
codetools NA "GPL"
colorspace NA "BSD_3_clause + file LICENSE"
compiler NA "Part of R 4.3.2"
crayon NA "MIT + file LICENSE"
data.table NA "MPL-2.0 | file LICENSE"
datasets NA "Part of R 4.3.2"
dichromat NA "GPL-2"
digest NA "GPL (>= 2)"
fansi NA "GPL-2 | GPL-3"
farver NA "MIT + file LICENSE"
foreign NA "GPL (>= 2)"
ggplot2 "sp" "MIT + file LICENSE"
glue NA "MIT + file LICENSE"
grDevices NA "Part of R 4.3.2"
graphics NA "Part of R 4.3.2"
grid NA "Part of R 4.3.2"
gtable NA "MIT + file LICENSE"
isoband NA "MIT + file LICENSE"
labeling NA "MIT + file LICENSE | Unlimited"
lattice "chron" "GPL (>= 2)"
lazyeval NA "GPL-3"
lifecycle NA "MIT + file LICENSE"
magrittr NA "MIT + file LICENSE"
methods NA "Part of R 4.3.2"
mgcv NA "GPL (>= 2)"
munsell NA "MIT + file LICENSE"
nlme NA "GPL (>= 2)"
nnet NA "GPL-2 | GPL-3"
parallel "snow, Rmpi" "Part of R 4.3.2"
pillar NA "MIT + file LICENSE"
pkgconfig NA "MIT + file LICENSE"
plyr NA "MIT + file LICENSE"
proto NA "GPL-2"
reshape2 NA "MIT + file LICENSE"
rlang "winch" "MIT + file LICENSE"
rpart NA "GPL-2 | GPL-3"
scales NA "MIT + file LICENSE"
spatial NA "GPL-2 | GPL-3"
splines NA "Part of R 4.3.2"
stats NA "Part of R 4.3.2"
stats4 NA "Part of R 4.3.2"
stringi NA "file LICENSE"
stringr NA "GPL-2 | file LICENSE"
survival NA "LGPL (>= 2)"
tcltk NA "Part of R 4.3.2"
tibble NA "MIT + file LICENSE"
tools NA "Part of R 4.3.2"
utf8 NA "Apache License (== 2.0) | file LICENSE"
utils NA "Part of R 4.3.2"
vctrs NA "MIT + file LICENSE"
viridisLite NA "MIT + file LICENSE"
withr NA "MIT + file LICENSE"
License_is_FOSS License_restricts_use OS_type MD5sum
KernSmooth NA NA NA NA
MASS NA NA NA NA
Matrix NA NA NA NA
R6 NA NA NA NA
RColorBrewer NA NA NA NA
Rcpp NA NA NA NA
assertthat NA NA NA NA
base NA NA NA NA
boot NA NA NA NA
chron NA NA NA NA
class NA NA NA NA
cli NA NA NA NA
cluster NA NA NA NA
codetools NA NA NA NA
colorspace NA NA NA NA
compiler NA NA NA NA
crayon NA NA NA NA
data.table NA NA NA NA
datasets NA NA NA NA
dichromat NA NA NA NA
digest NA NA NA NA
fansi NA NA NA NA
farver NA NA NA NA
foreign NA NA NA NA
ggplot2 NA NA NA NA
glue NA NA NA NA
grDevices NA NA NA NA
graphics NA NA NA NA
grid NA NA NA NA
gtable NA NA NA NA
isoband NA NA NA NA
labeling NA NA NA NA
lattice NA NA NA NA
lazyeval NA NA NA NA
lifecycle NA NA NA NA
magrittr NA NA NA NA
methods NA NA NA NA
mgcv NA NA NA NA
munsell NA NA NA NA
nlme NA NA NA NA
nnet NA NA NA NA
parallel NA NA NA NA
pillar NA NA NA NA
pkgconfig NA NA NA NA
plyr NA NA NA NA
proto NA NA NA NA
reshape2 NA NA NA NA
rlang NA NA NA NA
rpart NA NA NA NA
scales NA NA NA NA
spatial NA NA NA NA
splines NA NA NA NA
stats NA NA NA NA
stats4 NA NA NA NA
stringi "yes" NA NA NA
stringr NA NA NA NA
survival NA NA NA NA
tcltk NA NA NA NA
tibble NA NA NA NA
tools NA NA NA NA
utf8 NA NA NA NA
utils NA NA NA NA
vctrs NA NA NA NA
viridisLite NA NA NA NA
withr NA NA NA NA
NeedsCompilation Built
KernSmooth "yes" "4.3.2"
MASS "yes" "4.3.2"
Matrix "yes" "4.3.2"
R6 "no" "4.1.2"
RColorBrewer "no" "4.1.2"
Rcpp "yes" "4.1.2"
assertthat "no" "3.5.1"
base NA "4.3.2"
boot "no" "4.3.2"
chron "yes" "4.1.2"
class "yes" "4.3.2"
cli "yes" "4.1.2"
cluster "yes" "4.3.2"
codetools "no" "4.3.2"
colorspace "yes" "4.1.2"
compiler NA "4.3.2"
crayon "no" "3.5.1"
data.table "yes" "4.1.2"
datasets NA "4.3.2"
dichromat "no" "4.1.2"
digest "yes" "4.1.2"
fansi "yes" "4.1.2"
farver "yes" "4.1.2"
foreign "yes" "4.3.2"
ggplot2 "no" "4.1.2"
glue "yes" "4.1.2"
grDevices "yes" "4.3.2"
graphics "yes" "4.3.2"
grid "yes" "4.3.2"
gtable "no" "4.1.2"
isoband "yes" "4.1.2"
labeling "no" "4.1.2"
lattice "yes" "4.3.2"
lazyeval "yes" "3.5.1"
lifecycle "no" "4.1.2"
magrittr "yes" "4.1.2"
methods "yes" "4.3.2"
mgcv "yes" "4.3.2"
munsell "no" "4.1.2"
nlme "yes" "4.3.2"
nnet "yes" "4.3.2"
parallel "yes" "4.3.2"
pillar "no" "4.1.2"
pkgconfig "no" "4.1.2"
plyr "yes" "4.1.2"
proto "no" "4.1.2"
reshape2 "yes" "3.5.1"
rlang "yes" "4.1.2"
rpart "yes" "4.3.2"
scales "no" "4.1.2"
spatial "yes" "4.3.2"
splines "yes" "4.3.2"
stats "yes" "4.3.2"
stats4 NA "4.3.2"
stringi "yes" "3.5.1"
stringr "no" "3.5.1"
survival "yes" "4.3.2"
tcltk "yes" "4.3.2"
tibble "yes" "4.1.2"
tools "yes" "4.3.2"
utf8 "yes" "4.1.2"
utils "yes" "4.3.2"
vctrs "yes" "4.1.2"
viridisLite "no" "3.5.1"
withr "no" "4.1.2"
> install.packages('data.table')
--- Please select a CRAN mirror for use in this session ---
Warning: failed to download mirrors file (cannot open URL 'https://cran.r-project.org/CRAN_mirrors.csv'); using local file '/opt/freeware/lib64/R/doc/CRAN_mirrors.csv'
Secure CRAN mirrors
1: 0-Cloud [https]
2: Australia (Canberra) [https]
3: Australia (Melbourne 1) [https]
4: Australia (Melbourne 2) [https]
5: Australia (Perth) [https]
6: Austria [https]
7: Belgium (Brussels) [https]
8: Brazil (PR) [https]
9: Brazil (RJ) [https]
10: Brazil (SP 1) [https]
11: Brazil (SP 2) [https]
12: Bulgaria [https]
13: Canada (MB) [https]
14: Canada (ON 3) [https]
15: Chile (Santiago) [https]
16: China (Beijing 2) [https]
17: China (Beijing 3) [https]
18: China (Hefei) [https]
19: China (Hong Kong) [https]
20: China (Guangzhou) [https]
21: China (Jinan) [https]
22: China (Lanzhou) [https]
23: China (Nanjing) [https]
24: China (Shanghai 2) [https]
25: China (Shenzhen) [https]
26: Colombia (Cali) [https]
27: Costa Rica [https]
28: Czech Republic [https]
29: Denmark [https]
30: East Asia [https]
31: Ecuador (Cuenca) [https]
32: France (Lyon 1) [https]
33: France (Lyon 2) [https]
34: France (Marseille) [https]
35: France (Paris 1) [https]
36: Germany (Erlangen) [https]
37: Germany (Leipzig) [https]
38: Germany (Göttingen) [https]
39: Germany (Münster) [https]
40: Germany (Regensburg) [https]
41: Greece [https]
42: Hungary [https]
43: Iceland [https]
44: India [https]
45: Indonesia (Banda Aceh) [https]
46: Iran (Mashhad) [https]
47: Italy (Milano) [https]
48: Italy (Padua) [https]
49: Japan (Tokyo) [https]
50: Japan (Yonezawa) [https]
51: Korea (Gyeongsan-si) [https]
52: Malaysia [https]
53: Mexico (Mexico City) [https]
54: Mexico (Texcoco) [https]
55: Morocco [https]
56: Netherlands (Dronten) [https]
57: New Zealand [https]
58: Norway [https]
59: South Africa (Johannesburg) [https]
60: Spain (A Coruña) [https]
61: Spain (Madrid) [https]
62: Sweden (Umeå) [https]
63: Switzerland (Zurich 1) [https]
64: Taiwan (Taipei) [https]
65: Turkey (Denizli) [https]
66: Turkey (Istanbul) [https]
67: Turkey (Mersin) [https]
68: UK (Bristol) [https]
69: UK (London 1) [https]
70: USA (IA) [https]
71: USA (MI) [https]
72: USA (MO) [https]
73: USA (OH) [https]
74: USA (OR) [https]
75: USA (TN) [https]
76: United Arab Emirates [https]
77: Uruguay [https]
78: (other mirrors)
Selection: 36
Warning: unable to access index for repository https://ftp.fau.de/cran/src/contrib:
cannot open URL 'https://ftp.fau.de/cran/src/contrib/PACKAGES'
Warning messages:
1: In download.file(url, destfile = f, quiet = TRUE) :
URL 'https://cran.r-project.org/CRAN_mirrors.csv': status was 'Couldn't resolve host name'
2: package 'data.table' is not available for this version of R
A version of this package for your version of R might be available elsewhere,
see the ideas at
https://cran.r-project.org/doc/manuals/r-patched/R-admin.html#Installing-packages
>
------------------------------
Vincencio Michaelis
Original Message:
Sent: Tue November 05, 2024 04:24 AM
From: Ayappan P
Subject: Got R Abend on AIX - how to handle this here or in a PMR Case ?
You can invoke "R" and get into R Shell and execute " installed.packages() ". Then to update run " install.packages('data.table') "
------------------------------
Ayappan P
Original Message:
Sent: Tue November 05, 2024 02:46 AM
From: Vincencio Michaelis
Subject: Got R Abend on AIX - how to handle this here or in a PMR Case ?
i dont know how to check version and how to update...sorry not a specialist here :-)
vince
------------------------------
Vincencio Michaelis
Original Message:
Sent: Tue November 05, 2024 02:38 AM
From: Ayappan P
Subject: Got R Abend on AIX - how to handle this here or in a PMR Case ?
What is the data.table version you have ? Can you try to update data.table version and check ?
------------------------------
Ayappan P
Original Message:
Sent: Tue November 05, 2024 02:31 AM
From: Vincencio Michaelis
Subject: Got R Abend on AIX - how to handle this here or in a PMR Case ?
hello
not what i can see....
root@rb3zf01(Si):/cpt/logs $ ulimit -a
time(seconds) unlimited
file(blocks) unlimited
data(kbytes) unlimited
stack(kbytes) unlimited
memory(kbytes) unlimited
coredump(blocks) unlimited
nofiles(descriptors) unlimited
threads(per process) unlimited
processes(per user) 4096
root@rb3zf01(Si):/cpt/logs $ smtctl
This system is SMT capable.
This system supports up to 8 SMT threads per processor.
SMT is currently enabled.
SMT boot mode is not set.
SMT threads are bound to the same virtual processor.
proc0 has 8 SMT threads.
Bind processor 0 is bound with proc0
Bind processor 1 is bound with proc0
Bind processor 2 is bound with proc0
Bind processor 3 is bound with proc0
Bind processor 4 is bound with proc0
Bind processor 5 is bound with proc0
Bind processor 6 is bound with proc0
Bind processor 7 is bound with proc0
root@rb3zf01(Si):/cpt/logs $ lparstat -i
Node Name : rb3zf01
Partition Name : rb3zf01
Partition Number : 2
Type : Shared-SMT-8
Mode : Uncapped
Entitled Capacity : 8.00
Partition Group-ID : 0
Shared Pool ID : 0
Online Virtual CPUs : 100
Maximum Virtual CPUs : 120
Minimum Virtual CPUs : 1
Online Memory : 147456 MB
Maximum Memory : 524288 MB
Minimum Memory : 2048 MB
Variable Capacity Weight : 32
Minimum Capacity : 1.00
Maximum Capacity : 64.00
Capacity Increment : 0.01
Maximum Physical CPUs in system : 192
Active Physical CPUs in system : 192
Active CPUs in Pool : 181
R-4.3.2-1.ppc
R-devel-4.3.2-1.ppc
root@rb3zf01(Si):/cpt/R $ ls -la /opt/freeware/lib64/R/library/data.table
total 504
drwxr-xr-x 11 root system 4096 Nov 15 2022 .
drwxr-xr-x 68 root system 4096 Dec 14 2023 ..
-rw-r--r-- 1 root system 5416 Nov 15 2022 DESCRIPTION
-rw-r--r-- 1 root system 3761 Nov 15 2022 INDEX
-rw-r--r-- 1 root system 16726 Nov 15 2022 LICENSE
drwxr-xr-x 2 root system 256 Nov 15 2022 Meta
-rw-r--r-- 1 root system 5995 Nov 15 2022 NAMESPACE
-rw-r--r-- 1 root system 192638 Nov 15 2022 NEWS.md
drwxr-xr-x 2 root system 256 Nov 15 2022 R
-rw-r--r-- 1 root system 92 Nov 15 2022 cc
drwxr-xr-x 2 root system 4096 Nov 15 2022 doc
drwxr-xr-x 2 root system 256 Nov 15 2022 help
drwxr-xr-x 2 root system 256 Nov 15 2022 html
drwxr-xr-x 2 root system 256 Nov 15 2022 include
drwxr-xr-x 2 root system 256 Nov 15 2022 libs
drwxr-xr-x 4 root system 256 Nov 15 2022 po
drwxr-xr-x 3 root system 4096 Nov 15 2022 tests
root@rb3zf01(Si):/cpt/R $ ls -la /opt/freeware/lib64/R/library/data.table/R/data.table
-rw-r--r-- 1 root system 1058 Nov 15 2022 /opt/freeware/lib64/R/library/data.table/R/data.table
root@rb3zf01(Si):/cpt/R $ vi /opt/freeware/lib64/R/library/data.table/R/data.table
------------------------------
Vincencio Michaelis
Original Message:
Sent: Tue November 05, 2024 02:20 AM
From: Ayappan P
Subject: Got R Abend on AIX - how to handle this here or in a PMR Case ?
Looks like errors are coming from data.table ( separate R module ) and also seems to be related to resource issues. Any resource related changes are done in the machine ? ( ulimits, CPUs , SMT, Memory)
------------------------------
Ayappan P
Original Message:
Sent: Mon November 04, 2024 03:39 AM
From: Vincencio Michaelis
Subject: Got R Abend on AIX - how to handle this here or in a PMR Case ?
Hello
yes it is reproducable.. i made a new run of CPT today and got again an abend...i made a reboot yesterday but has not solved the problem. I have tried to do a snapcore but i dont know where the R binary is stored. In the CPT logs i found this :
root@rb3zf01(Si):/cpt/logs $ cat 20241104.R.stderr
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
address c600, cause 'invalid permissions'
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
address ac00, cause 'invalid permissions'
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
address a000, cause 'invalid permissions'
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
address bd00, cause 'invalid permissions'
address f00, cause 'invalid permissions'
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
address 624, cause 'invalid permissions'
Traceback:
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
address 24c, cause 'invalid permissions'
Traceback:
address b8, cause 'invalid permissions'
address b00, cause 'invalid permissions'
address 9f00, cause 'invalid permissions'
1: address b000, cause 'invalid permissions'
address 1b00, cause 'invalid permissions'
address c900, cause 'invalid permissions'
Traceback:
forderv(byval, sort = keyby, retGrp = TRUE)Error: no more error handlers available (recursive errors?); invoking 'abort' restart
1: address 500, cause 'invalid permissions'
Traceback:
Lost warning messages
forderv(byval, sort = keyby, retGrp = TRUE)
Traceback:
Traceback:
Execution halted
address 1500, cause 'invalid permissions'
1:
*** caught segfault ***
Traceback:
1: Error: no more error handlers available (recursive errors?); invoking 'abort' restart
address a400, cause 'invalid permissions'
address aa00, cause 'invalid permissions'
Fatal error: error during cleanup
------------------------------
Vincencio Michaelis
Original Message:
Sent: Sun November 03, 2024 07:51 AM
From: SANKET RATHI
Subject: Got R Abend on AIX - how to handle this here or in a PMR Case ?
You said "Since a few days the application is aborting with Core dump", was it not happening before? What changed that is causing this core dump?
Is there a sample test case to reproduce issue?
Also can you share core file?
Original Message:
Sent: 11/2/2024 6:50:00 AM
From: Vincencio Michaelis
Subject: RE: Got R Abend on AIX - how to handle this here or in a PMR Case ?
i found a document saying no official ibm case support in a pmr but hopefully someone building R can help me here a bit ?
thx
vince
------------------------------
Vincencio Michaelis
Original Message:
Sent: Sat November 02, 2024 06:42 AM
From: Vincencio Michaelis
Subject: Got R Abend on AIX - how to handle this here or in a PMR Case ?
Hi
i'm running R version 4.3.2 (2023-10-31) -- "Eye Holes" on AIX 7300-02-01-2346 for IBM Lab Service tool "Hardware capacity planning tool. Since
a few days the application is aborting with Core dump
root@rb3zf01(Si):/cpt/logs $ cat 20241101.R.stderr
*** caught segfault ***
*** caught segfault ***
address c0, cause 'invalid permissions'
address a0, cause 'invalid permissions'
Traceback:
1: forderv(byval, sort = keyby, retGrp = TRUE)
2: `[.data.table`(xx, !top10, NULL(), by = timestamp)
3: xx[!top10, list(partitionName = "not_top_10", physicalCPUconsumption = sum(physicalCPUconsumption), ecsum = ecsum), by = timestamp]
4: framecpuplot(cpu[poolid == mypoolid], mypoolid)
An irrecoverable exception occurred. R is aborting now ...
Error in forderv(byval, sort = keyby, retGrp = TRUE) : bad value
Calls: framecpuplot -> [ -> [.data.table -> forderv
and in AIX Errorlog i see:
LABEL: CORE_DUMP
IDENTIFIER: A924A5FC
Date/Time: Fri Nov 1 22:12:59 CET 2024
Sequence Number: 26189
Machine Id: 00C6A8E84C00
Node Id: rb3zf01
Class: S
Type: PERM
WPAR: Global
Resource Name: SYSPROC
Description
SOFTWARE PROGRAM ABNORMALLY TERMINATED
Probable Causes
SOFTWARE PROGRAM
User Causes
USER GENERATED SIGNAL
Recommended Actions
CORRECT THEN RETRY
Failure Causes
SOFTWARE PROGRAM
Recommended Actions
RERUN THE APPLICATION PROGRAM
IF PROBLEM PERSISTS THEN DO THE FOLLOWING
CONTACT APPROPRIATE SERVICE REPRESENTATIVE
Detail Data
SIGNAL NUMBER
11
USER'S PROCESS ID:
65536592
FILE SYSTEM SERIAL NUMBER
13
INODE NUMBER
4
CORE FILE NAME
/cpt/R/core
PROGRAM NAME
R
STACK EXECUTION DISABLED
0
COME FROM ADDRESS REGISTER
??
PROCESSOR ID
hw_fru_id: 0
hw_cpu_id: 12
ADDITIONAL INFORMATION
??
push.part D8
Symptom Data
REPORTABLE
1
INTERNAL ERROR
0
SYMPTOM CODE
PCSS/SPI2 FLDS/R SIG/4 FLDS/push.part VALU/d8
can someone help me here please ?
thx
vince
------------------------------
Vincencio Michaelis
------------------------------
#AIXOpenSource