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‎..Rcheck/00check.log‎

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* using log directory ‘/home/vinni/data.table/..Rcheck’
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* using R version 4.3.3 (2024-02-29)
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* using platform: x86_64-pc-linux-gnu (64-bit)
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* R was compiled by
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gcc (Ubuntu 13.2.0-23ubuntu3) 13.2.0
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GNU Fortran (Ubuntu 13.2.0-23ubuntu3) 13.2.0
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* running under: Linux Mint 22
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* using session charset: UTF-8
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* checking for file ‘./DESCRIPTION’ ... OK
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* this is package ‘data.table’ version ‘1.16.99’
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* package encoding: UTF-8
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* checking package namespace information ... OK
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* checking package dependencies ... OK
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* checking if this is a source package ... WARNING
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Subdirectory ‘data.table/src’ contains apparent object files/libraries
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assign.o between.o bmerge.o chmatch.o cj.o coalesce.o data_table.so
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dogroups.o fastmean.o fcast.o fifelse.o fmelt.o forder.o frank.o
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fread.o freadR.o froll.o frollR.o frolladaptive.o fsort.o fwrite.o
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fwriteR.o gsumm.o idatetime.o ijoin.o init.o inrange.o nafill.o
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negate.o nqrecreateindices.o openmp-utils.o programming.o
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quickselect.o rbindlist.o reorder.o shift.o snprintf.o subset.o
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transpose.o types.o uniqlist.o utils.o vecseq.o wrappers.o
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Object files/libraries should not be included in a source package.
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* checking if there is a namespace ... OK
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* checking for executable files ... OK
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* checking for hidden files and directories ... NOTE
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Found the following hidden files and directories:
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.ci/.lintr.R
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.dev/.Rprofile
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.dev/.bash_aliases
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.devcontainer/.Rprofile
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.gitattributes
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.github/.gitignore
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.gitignore
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.gitlab-ci.yml
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vignettes/.check.translations.R
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..Rcheck
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.ci
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.dev
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.devcontainer
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.git
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.github
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.graphics
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These were most likely included in error. See section ‘Package
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structure’ in the ‘Writing R Extensions’ manual.
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* checking for portable file names ... OK
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* checking for sufficient/correct file permissions ... OK
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* checking whether package ‘data.table’ can be installed ... OK
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* used C compiler: ‘gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0’
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* checking installed package size ... NOTE
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installed size is 6.1Mb
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sub-directories of 1Mb or more:
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libs 1.8Mb
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po 1.3Mb
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tests 1.9Mb
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* checking package directory ... OK
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* checking DESCRIPTION meta-information ... NOTE
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Checking should be performed on sources prepared by ‘R CMD build’.
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* checking top-level files ... OK
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* checking for left-over files ... OK
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* checking index information ... OK
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* checking package subdirectories ... WARNING
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Found the following directory with the name of a check directory:
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./..Rcheck
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Most likely, these were included erroneously.
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* checking R files for non-ASCII characters ... WARNING
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Found the following file with non-ASCII characters:
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merge.R
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Portable packages must use only ASCII characters in their R code,
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except perhaps in comments.
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Use \uxxxx escapes for other characters.
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* checking R files for syntax errors ... OK
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* checking whether the package can be loaded ... OK
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* checking whether the package can be loaded with stated dependencies ... OK
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* checking whether the package can be unloaded cleanly ... OK
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* checking whether the namespace can be loaded with stated dependencies ... OK
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* checking whether the namespace can be unloaded cleanly ... OK
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* checking loading without being on the library search path ... OK
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* checking startup messages can be suppressed ... OK
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* checking dependencies in R code ... OK
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* checking S3 generic/method consistency ... OK
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* checking replacement functions ... OK
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* checking foreign function calls ... OK
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* checking R code for possible problems ... OK
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* checking Rd files ... OK
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* checking Rd metadata ... OK
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* checking Rd cross-references ... OK
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* checking for missing documentation entries ... OK
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* checking for code/documentation mismatches ... OK
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* checking Rd \usage sections ... OK
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* checking Rd contents ... OK
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* checking for unstated dependencies in examples ... OK
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* checking line endings in shell scripts ... OK
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* checking line endings in C/C++/Fortran sources/headers ... OK
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* checking line endings in Makefiles ... OK
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* checking compilation flags in Makevars ... NOTE
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Package has both ‘src/Makevars.in’ and ‘src/Makevars’.
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Installation with --no-configure' is unlikely to work. If you intended
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‘src/Makevars’ to be used on Windows, rename it to ‘src/Makevars.win’
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otherwise remove it. If ‘configure’ created ‘src/Makevars’, you need a
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‘cleanup’ script.
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* checking for GNU extensions in Makefiles ... WARNING
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Found the following file(s) containing GNU extensions:
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Makefile
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Portable Makefiles do not use GNU extensions such as +=, :=, $(shell),
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$(wildcard), ifeq ... endif, .NOTPARALLEL See section ‘Writing portable
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packages’ in the ‘Writing R Extensions’ manual.
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* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
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* checking use of PKG_*FLAGS in Makefiles ... OK
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* checking include directives in Makefiles ... OK
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* checking compiled code ... OK
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* checking files in ‘vignettes’ ... WARNING
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Files in the 'vignettes' directory but no files in 'inst/doc':
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‘Pitching.RData’ ‘Teams.RData’ ‘datatable-benchmarking.Rmd’
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‘datatable-faq.Rmd’ ‘datatable-importing.Rmd’ ‘datatable-intro.Rmd’
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‘datatable-joins.Rmd’ ‘datatable-keys-fast-subset.Rmd’
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‘datatable-programming.Rmd’ ‘datatable-reference-semantics.Rmd’
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‘datatable-reshape.Rmd’ ‘datatable-sd-usage.Rmd’
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‘datatable-secondary-indices-and-auto-indexing.Rmd’ ‘flights14.csv’
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‘fr/datatable-benchmarking.Rmd’ ‘fr/datatable-faq.Rmd’
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‘fr/datatable-importing.Rmd’ ‘fr/datatable-intro.Rmd’
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‘fr/datatable-keys-fast-subset.Rmd’ ‘fr/datatable-programming.Rmd’
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‘fr/datatable-reference-semantics.Rmd’ ‘fr/datatable-reshape.Rmd’
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‘fr/datatable-sd-usage.Rmd’
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‘fr/datatable-secondary-indices-and-auto-indexing.Rmd’
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‘plots/grouping_illustration.png’
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* checking examples ... OK
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* checking for unstated dependencies in ‘tests’ ... OK
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* checking tests ... OK
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Running ‘S4.R’
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Running ‘autoprint.R’
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Comparing ‘autoprint.Rout’ to ‘autoprint.Rout.save’ ... OK
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Running ‘froll.R’
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Running ‘knitr.R’
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Comparing ‘knitr.Rout’ to ‘knitr.Rout.save’ ... OK
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Running ‘main.R’
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Running ‘nafill.R’
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Running ‘other.R’
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Running ‘programming.R’
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Running ‘types.R’
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* checking for unstated dependencies in vignettes ... OK
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* checking package vignettes in ‘inst/doc’ ... WARNING
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Directory 'inst/doc' does not exist.
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Package vignettes without corresponding single PDF/HTML:
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‘datatable-benchmarking.Rmd’
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‘datatable-faq.Rmd’
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‘datatable-importing.Rmd’
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‘datatable-intro.Rmd’
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‘datatable-joins.Rmd’
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‘datatable-keys-fast-subset.Rmd’
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‘datatable-programming.Rmd’
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‘datatable-reference-semantics.Rmd’
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‘datatable-reshape.Rmd’
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‘datatable-sd-usage.Rmd’
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‘datatable-secondary-indices-and-auto-indexing.Rmd’
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* checking running R code from vignettes ... OK
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‘datatable-benchmarking.Rmd’ using ‘UTF-8’... OK
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‘datatable-faq.Rmd’ using ‘UTF-8’... OK
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‘datatable-importing.Rmd’ using ‘UTF-8’... OK
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‘datatable-intro.Rmd’ using ‘UTF-8’... OK
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‘datatable-joins.Rmd’ using ‘UTF-8’... OK
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‘datatable-keys-fast-subset.Rmd’ using ‘UTF-8’... OK
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‘datatable-programming.Rmd’ using ‘UTF-8’... OK
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‘datatable-reference-semantics.Rmd’ using ‘UTF-8’... OK
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‘datatable-reshape.Rmd’ using ‘UTF-8’... OK
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‘datatable-sd-usage.Rmd’ using ‘UTF-8’... OK
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‘datatable-secondary-indices-and-auto-indexing.Rmd’ using ‘UTF-8’... OK
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* checking re-building of vignette outputs ... OK
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* checking PDF version of manual ... OK
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* DONE
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Status: 6 WARNINGs, 4 NOTEs

‎..Rcheck/00install.out‎

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* installing *source* package ‘data.table’ ...
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** using staged installation
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gcc 13.3.0
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zlib 1.3 is available ok
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* checking if R installation supports OpenMP without any extra hints... yes
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** libs
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using C compiler: ‘gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0’
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gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -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 fsort.o fwrite.o fwriteR.o gsumm.o idatetime.o ijoin.o init.o inrange.o nafill.o negate.o nqrecreateindices.o openmp-utils.o programming.o quickselect.o rbindlist.o reorder.o shift.o snprintf.o subset.o transpose.o types.o uniqlist.o utils.o vecseq.o wrappers.o -fopenmp -lz -L/usr/lib/R/lib -lR
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PKG_CFLAGS = -fopenmp
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PKG_LIBS = -fopenmp -lz
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if [ "data.table.so" != "data_table.so" ]; then mv data.table.so data_table.so; fi
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if [ "" != "Windows_NT" ] && [ `uname -s` = 'Darwin' ]; then install_name_tool -id data_table.so data_table.so; fi
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installing to /home/vinni/data.table/..Rcheck/00LOCK-data.table/00new/data.table/libs
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** R
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** inst
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** byte-compile and prepare package for lazy loading
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** help
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*** installing help indices
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** building package indices
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** installing vignettes
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** testing if installed package can be loaded from temporary location
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** checking absolute paths in shared objects and dynamic libraries
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** testing if installed package can be loaded from final location
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** testing if installed package keeps a record of temporary installation path
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* DONE (data.table)

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