Datetime issue on one CRAN machine

[mattdowle]

Fail on one CRAN machine: r-release-linux-x86_64.
Tweet also here : https://twitter.com/MattDowle/status/991767160530731009

CRAN Log

using R version 3.5.0 (2018-04-23)
using platform: x86_64-pc-linux-gnu (64-bit)
using session charset: UTF-8
checking for file ‘data.table/DESCRIPTION’ ... OK
this is package ‘data.table’ version ‘1.11.0’
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 serialization versions ... OK
checking whether package ‘data.table’ can be installed ... OK
checking package directory ... OK
checking ‘build’ 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 R 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 use of S3 registration ... 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 ... [24s/31s] OK
checking Rd files ... OK
checking Rd metadata ... OK
checking Rd line widths ... 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 line endings in C/C++/Fortran sources/headers ... OK
checking line endings in Makefiles ... OK
checking compilation flags in Makevars ... OK
checking for GNU extensions in Makefiles ... OK
checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
checking include directives in Makefiles ... OK
checking pragmas in C/C++ headers and code ... OK
checking compilation flags used ... OK
checking compiled code ... OK
checking installed files from ‘inst/doc’ ... OK
checking files in ‘vignettes’ ... OK
checking examples ... ERROR
Running examples in ‘data.table-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: IDateTime
> ### Title: Integer based date class
> ### Aliases: IDate as.IDate ITime as.ITime IDateTime as.character.ITime
> ### as.chron.IDate as.chron.ITime as.Date.IDate as.IDate.Date
> ### as.IDate.default as.ITime.character as.ITime.default as.ITime.POSIXlt
> ### as.ITime.times as.list.IDate as.POSIXct.IDate as.POSIXct.ITime
> ### as.POSIXlt.ITime c.IDate cut.IDate format.ITime IDateTime.default
> ### mean.IDate print.ITime rep.IDate rep.ITime round.IDate seq.IDate
> ### split.IDate second minute hour yday wday mday week isoweek month
> ### quarter year IDate-class ITime-class
> ### Keywords: utilities chron
> 
> ### ** Examples
> 
> 
> # create IDate:
> (d <- as.IDate("2001-01-01"))
[1] "2001-01-01"
> 
> # S4 coercion also works
> identical(as.IDate("2001-01-01"), as("2001-01-01", "IDate"))
[1] TRUE
> 
> # create ITime:
> (t <- as.ITime("10:45"))
[1] "10:45:00"
> 
> # S4 coercion also works
> identical(as.ITime("10:45"), as("10:45", "ITime"))
[1] TRUE
> 
> (t <- as.ITime("10:45:04"))
[1] "10:45:04"
> 
> (t <- as.ITime("10:45:04", format = "%H:%M:%S"))
[1] "10:45:04"
> 
> as.POSIXct("2001-01-01") + as.ITime("10:45")
[1] "2001-01-01 10:45:00 CET"
> 
> datetime <- seq(as.POSIXct("2001-01-01"), as.POSIXct("2001-01-03"), by = "5 hour")
> (af <- data.table(IDateTime(datetime), a = rep(1:2, 5), key = "a,idate,itime"))
         idate itime a
 1: 2001-01-01 00:00:00 1
 2: 2001-01-01 10:00:00 1
 3: 2001-01-01 20:00:00 1
 4: 2001-01-02 06:00:00 1
 5: 2001-01-02 16:00:00 1
 6: 2001-01-01 05:00:00 2
 7: 2001-01-01 15:00:00 2
 8: 2001-01-02 01:00:00 2
 9: 2001-01-02 11:00:00 2
10: 2001-01-02 21:00:00 2
> 
> af[, mean(a), by = "itime"]
       itime V1
 1: 00:00:00 1
 2: 10:00:00 1
 3: 20:00:00 1
 4: 06:00:00 1
 5: 16:00:00 1
 6: 05:00:00 2
 7: 15:00:00 2
 8: 01:00:00 2
 9: 11:00:00 2
10: 21:00:00 2
> af[, mean(a), by = list(hour = hour(itime))]
    hour V1
 1: 0 1
 2: 10 1
 3: 20 1
 4: 6 1
 5: 16 1
 6: 5 2
 7: 15 2
 8: 1 2
 9: 11 2
10: 21 2
> af[, mean(a), by = list(wday = factor(weekdays(idate)))]
      wday V1
1: Monday 1.4
2: Tuesday 1.6
> af[, mean(a), by = list(wday = wday(idate))]
   wday V1
1: 2 1.4
2: 3 1.6
> 
> as.POSIXct(af$idate)
 [1] "2001-01-01 UTC" "2001-01-01 UTC" "2001-01-01 UTC" "2001-01-02 UTC"
 [5] "2001-01-02 UTC" "2001-01-01 UTC" "2001-01-01 UTC" "2001-01-02 UTC"
 [9] "2001-01-02 UTC" "2001-01-02 UTC"
> as.POSIXct(af$idate, time = af$itime)
 [1] "2001-01-01 00:00:00 UTC" "2001-01-01 10:00:00 UTC"
 [3] "2001-01-01 20:00:00 UTC" "2001-01-02 06:00:00 UTC"
 [5] "2001-01-02 16:00:00 UTC" "2001-01-01 05:00:00 UTC"
 [7] "2001-01-01 15:00:00 UTC" "2001-01-02 01:00:00 UTC"
 [9] "2001-01-02 11:00:00 UTC" "2001-01-02 21:00:00 UTC"
> as.POSIXct(af$idate, af$itime)
 [1] "2001-01-01 00:00:00 UTC" "2001-01-01 10:00:00 UTC"
 [3] "2001-01-01 20:00:00 UTC" "2001-01-02 06:00:00 UTC"
 [5] "2001-01-02 16:00:00 UTC" "2001-01-01 05:00:00 UTC"
 [7] "2001-01-01 15:00:00 UTC" "2001-01-02 01:00:00 UTC"
 [9] "2001-01-02 11:00:00 UTC" "2001-01-02 21:00:00 UTC"
> as.POSIXct(af$idate, time = af$itime, tz = "GMT")
 [1] "2001-01-01 00:00:00 GMT" "2001-01-01 10:00:00 GMT"
 [3] "2001-01-01 20:00:00 GMT" "2001-01-02 06:00:00 GMT"
 [5] "2001-01-02 16:00:00 GMT" "2001-01-01 05:00:00 GMT"
 [7] "2001-01-01 15:00:00 GMT" "2001-01-02 01:00:00 GMT"
 [9] "2001-01-02 11:00:00 GMT" "2001-01-02 21:00:00 GMT"
> 
> as.POSIXct(af$itime, af$idate)
 [1] "2001-01-01 00:00:00 UTC" "2001-01-01 10:00:00 UTC"
 [3] "2001-01-01 20:00:00 UTC" "2001-01-02 06:00:00 UTC"
 [5] "2001-01-02 16:00:00 UTC" "2001-01-01 05:00:00 UTC"
 [7] "2001-01-01 15:00:00 UTC" "2001-01-02 01:00:00 UTC"
 [9] "2001-01-02 11:00:00 UTC" "2001-01-02 21:00:00 UTC"
> as.POSIXct(af$itime) # uses today's date
 [1] "2018-05-02 00:00:00 UTC" "2018-05-02 10:00:00 UTC"
 [3] "2018-05-02 20:00:00 UTC" "2018-05-02 06:00:00 UTC"
 [5] "2018-05-02 16:00:00 UTC" "2018-05-02 05:00:00 UTC"
 [7] "2018-05-02 15:00:00 UTC" "2018-05-02 01:00:00 UTC"
 [9] "2018-05-02 11:00:00 UTC" "2018-05-02 21:00:00 UTC"
> 
> (seqdates <- seq(as.IDate("2001-01-01"), as.IDate("2001-08-03"), by = "3 weeks"))
 [1] "2001-01-01" "2001-01-22" "2001-02-12" "2001-03-05" "2001-03-26"
 [6] "2001-04-16" "2001-05-07" "2001-05-28" "2001-06-18" "2001-07-09"
[11] "2001-07-30"
> round(seqdates, "months")
 [1] "2001-01-01" "2001-01-01" "2001-02-01" "2001-03-01" "2001-03-01"
 [6] "2001-04-01" "2001-05-01" "2001-05-01" "2001-06-01" "2001-07-01"
[11] "2001-07-01"
> 
> if (require(chron)) {
+ as.chron(as.IDate("2000-01-01"))
+ as.chron(as.ITime("10:45"))
+ as.chron(as.IDate("2000-01-01"), as.ITime("10:45"))
+ as.chron(as.ITime("10:45"), as.IDate("2000-01-01"))
+ as.ITime(chron(times = "11:01:01"))
+ IDateTime(chron("12/31/98","10:45:00"))
+ }
Loading required package: chron
Error in strptime(x, format, tz = tz) : invalid 'x' argument
Calls: as.chron ... as.POSIXct -> as.POSIXlt -> as.POSIXlt.character -> strptime
Execution halted
checking for unstated dependencies in ‘tests’ ... OK
checking tests ... [90s/111s] OK
  Running ‘autoprint.R’ [0s/1s]
  Comparing ‘autoprint.Rout’ to ‘autoprint.Rout.save’ ... OK
  Running ‘knitr.R’ [1s/1s]
  Comparing ‘knitr.Rout’ to ‘knitr.Rout.save’ ... OK
  Running ‘main.R’ [88s/108s]
  Running ‘testthat.R’ [1s/2s]
checking for unstated dependencies in vignettes ... OK
checking package vignettes in ‘inst/doc’ ... OK
checking re-building of vignette outputs ... [17s/20s] OK
checking PDF version of manual ... OK
DONE
Status: 1 ERROR

[MichaelChirico]

do we know the locale on that machine?

…

On Thu, May 3, 2018, 9:17 AM Matt Dowle ***@***.***> wrote: Fail on one CRAN machine: r-release-linux-x86_64. Tweet also here : https://twitter.com/MattDowle/status/991767160530731009 CRAN Log ``` using R version 3.5.0 Patched (2018-04-28 r74673) using platform: x86_64-pc-linux-gnu (64-bit) using session charset: UTF-8 checking for file ‘data.table/DESCRIPTION’ ... OK this is package ‘data.table’ version ‘1.10.4-3’ 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 serialization versions ... OK checking whether package ‘data.table’ can be installed ... OK checking package directory ... OK checking ‘build’ 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 R 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 use of S3 registration ... 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 ... [23s/30s] OK checking Rd files ... OK checking Rd metadata ... OK checking Rd line widths ... 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 line endings in C/C++/Fortran sources/headers ... OK checking line endings in Makefiles ... OK checking compilation flags in Makevars ... OK checking for GNU extensions in Makefiles ... OK checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK checking include directives in Makefiles ... OK checking pragmas in C/C++ headers and code ... OK checking compilation flags used ... OK checking compiled code ... OK checking installed files from ‘inst/doc’ ... OK checking files in ‘vignettes’ ... OK checking examples ... ERROR Running examples in ‘data.table-Ex.R’ failed The error most likely occurred in: base::assign(".ptime", proc.time(), pos = "CheckExEnv") Name: IDateTime Title: Integer based date class Aliases: IDate as.IDate ITime as.ITime IDateTime as.character.ITime as.chron.IDate as.chron.ITime as.Date.IDate as.IDate.Date as.IDate.default as.ITime.character as.ITime.default as.ITime.POSIXlt as.ITime.times as.list.IDate as.POSIXct.IDate as.POSIXct.ITime as.POSIXlt.ITime c.IDate cut.IDate format.ITime IDateTime.default mean.IDate print.ITime rep.IDate rep.ITime round.IDate seq.IDate split.IDate second minute hour yday wday mday week isoweek month quarter year IDate-class ITime-class Keywords: utilities chron ** Examples create IDate: (d <- as.IDate("2001-01-01")) [1] "2001-01-01" S4 coercion also works identical(as.IDate("2001-01-01"), as("2001-01-01", "IDate")) [1] TRUE create ITime: (t <- as.ITime("10:45")) [1] "10:45:00" S4 coercion also works identical(as.ITime("10:45"), as("10:45", "ITime")) [1] TRUE (t <- as.ITime("10:45:04")) [1] "10:45:04" (t <- as.ITime("10:45:04", format = "%H:%M:%S")) [1] "10:45:04" as.POSIXct("2001-01-01") + as.ITime("10:45") [1] "2001-01-01 10:45:00 CET" datetime <- seq(as.POSIXct("2001-01-01"), as.POSIXct("2001-01-03"), by = "5 hour") (af <- data.table(IDateTime(datetime), a = rep(1:2, 5), key = "a,idate,itime")) idate itime a 1: 2001-01-01 00:00:00 1 2: 2001-01-01 10:00:00 1 3: 2001-01-01 20:00:00 1 4: 2001-01-02 06:00:00 1 5: 2001-01-02 16:00:00 1 6: 2001-01-01 05:00:00 2 7: 2001-01-01 15:00:00 2 8: 2001-01-02 01:00:00 2 9: 2001-01-02 11:00:00 2 10: 2001-01-02 21:00:00 2 af[, mean(a), by = "itime"] itime V1 1: 00:00:00 1 2: 10:00:00 1 3: 20:00:00 1 4: 06:00:00 1 5: 16:00:00 1 6: 05:00:00 2 7: 15:00:00 2 8: 01:00:00 2 9: 11:00:00 2 10: 21:00:00 2 af[, mean(a), by = list(hour = hour(itime))] hour V1 1: 0 1 2: 10 1 3: 20 1 4: 6 1 5: 16 1 6: 5 2 7: 15 2 8: 1 2 9: 11 2 10: 21 2 af[, mean(a), by = list(wday = factor(weekdays(idate)))] wday V1 1: Monday 1.4 2: Tuesday 1.6 af[, mean(a), by = list(wday = wday(idate))] wday V1 1: 2 1.4 2: 3 1.6 as.POSIXct(af$idate) [1] "2001-01-01 UTC" "2001-01-01 UTC" "2001-01-01 UTC" "2001-01-02 UTC" [5] "2001-01-02 UTC" "2001-01-01 UTC" "2001-01-01 UTC" "2001-01-02 UTC" [9] "2001-01-02 UTC" "2001-01-02 UTC" as.POSIXct(af$idate, time = af$itime) [1] "2001-01-01 00:00:00 UTC" "2001-01-01 10:00:00 UTC" [3] "2001-01-01 20:00:00 UTC" "2001-01-02 06:00:00 UTC" [5] "2001-01-02 16:00:00 UTC" "2001-01-01 05:00:00 UTC" [7] "2001-01-01 15:00:00 UTC" "2001-01-02 01:00:00 UTC" [9] "2001-01-02 11:00:00 UTC" "2001-01-02 21:00:00 UTC" as.POSIXct(af$idate, af$itime) [1] "2001-01-01 00:00:00 UTC" "2001-01-01 10:00:00 UTC" [3] "2001-01-01 20:00:00 UTC" "2001-01-02 06:00:00 UTC" [5] "2001-01-02 16:00:00 UTC" "2001-01-01 05:00:00 UTC" [7] "2001-01-01 15:00:00 UTC" "2001-01-02 01:00:00 UTC" [9] "2001-01-02 11:00:00 UTC" "2001-01-02 21:00:00 UTC" as.POSIXct(af$idate, time = af$itime, tz = "GMT") [1] "2001-01-01 00:00:00 GMT" "2001-01-01 10:00:00 GMT" [3] "2001-01-01 20:00:00 GMT" "2001-01-02 06:00:00 GMT" [5] "2001-01-02 16:00:00 GMT" "2001-01-01 05:00:00 GMT" [7] "2001-01-01 15:00:00 GMT" "2001-01-02 01:00:00 GMT" [9] "2001-01-02 11:00:00 GMT" "2001-01-02 21:00:00 GMT" as.POSIXct(af$itime, af$idate) [1] "2001-01-01 00:00:00 UTC" "2001-01-01 10:00:00 UTC" [3] "2001-01-01 20:00:00 UTC" "2001-01-02 06:00:00 UTC" [5] "2001-01-02 16:00:00 UTC" "2001-01-01 05:00:00 UTC" [7] "2001-01-01 15:00:00 UTC" "2001-01-02 01:00:00 UTC" [9] "2001-01-02 11:00:00 UTC" "2001-01-02 21:00:00 UTC" as.POSIXct(af$itime) # uses today's date [1] "2018-05-01 00:00:00 UTC" "2018-05-01 10:00:00 UTC" [3] "2018-05-01 20:00:00 UTC" "2018-05-01 06:00:00 UTC" [5] "2018-05-01 16:00:00 UTC" "2018-05-01 05:00:00 UTC" [7] "2018-05-01 15:00:00 UTC" "2018-05-01 01:00:00 UTC" [9] "2018-05-01 11:00:00 UTC" "2018-05-01 21:00:00 UTC" (seqdates <- seq(as.IDate("2001-01-01"), as.IDate("2001-08-03"), by = "3 weeks")) [1] "2001-01-01" "2001-01-22" "2001-02-12" "2001-03-05" "2001-03-26" [6] "2001-04-16" "2001-05-07" "2001-05-28" "2001-06-18" "2001-07-09" [11] "2001-07-30" round(seqdates, "months") [1] "2001-01-01" "2001-01-01" "2001-02-01" "2001-03-01" "2001-03-01" [6] "2001-04-01" "2001-05-01" "2001-05-01" "2001-06-01" "2001-07-01" [11] "2001-07-01" if (require(chron)) { - as.chron(as.IDate("2000-01-01")) - as.chron(as.ITime("10:45")) - as.chron(as.IDate("2000-01-01"), as.ITime("10:45")) - as.chron(as.ITime("10:45"), as.IDate("2000-01-01")) - as.ITime(chron(times = "11:01:01")) - IDateTime(chron("12/31/98","10:45:00")) - } Loading required package: chron Error in strptime(x, format, tz = tz) : invalid 'x' argument Calls: as.chron ... as.POSIXct -> as.POSIXlt -> as.POSIXlt.character -> strptime Execution halted checking for unstated dependencies in ‘tests’ ... OK checking tests ... [155s/192s] ERROR Running ‘autoprint.R’ [0s/1s] Comparing ‘autoprint.Rout’ to ‘autoprint.Rout.save’ ... OK Running ‘knitr.R’ [1s/1s] Comparing ‘knitr.Rout’ to ‘knitr.Rout.save’ ... OK Running ‘main.R’ [153s/189s] Running the tests in ‘tests/main.R’ failed. Complete output: require(data.table) Loading required package: data.table test.data.table() # runs the main test suite of 5,000+ tests in /inst/tests/tests.Rraw Running /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/data.table/tests/tests.Rraw Loading required package: bit64 Loading required package: bit Attaching package bit package:bit (c) 2008-2012 Jens Oehlschlaegel (GPL-2) creators: bit bitwhich coercion: as.logical as.integer as.bit as.bitwhich which operator: ! & | xor != == querying: print length any all min max range sum summary bit access: length<- [ [<- [[ [[<- for more help type ?bit Attaching package: 'bit' The following object is masked from 'package:data.table': setattr The following object is masked from 'package:base': xor Attaching package bit64 package:bit64 (c) 2011-2012 Jens Oehlschlaegel creators: integer64 seq : coercion: as.integer64 as.vector as.logical as.integer as.double as.character as.bin logical operator: ! & | xor != == < <= >= > arithmetic operator: + - * / %/% %% ^ math: sign abs sqrt log log2 log10 math: floor ceiling trunc round querying: is.integer64 is.vector [is.atomic} [length] format print str values: is.na is.nan is.finite is.infinite aggregation: any all min max range sum prod cumulation: diff cummin cummax cumsum cumprod access: length<- [ [<- [[ [[<- combine: c rep cbind rbind as.data.frame WARNING don't use as subscripts WARNING semantics differ from integer for more help type ?bit64 Attaching package: 'bit64' The following object is masked from 'package:bit': still.identical The following objects are masked from 'package:base': %in%, :, is.double, match, order, rank Loading required package: knitr Loading required package: nanotime Loading required package: chron Loading required package: ggplot2 Loading required package: plyr Loading required package: reshape Attaching package: 'reshape' The following objects are masked from 'package:plyr': rename, round_any The following object is masked from 'package:data.table': melt Loading required package: reshape2 Attaching package: 'reshape2' The following objects are masked from 'package:reshape': colsplit, melt, recast The following objects are masked from 'package:data.table': dcast, melt Loading required package: testthat Loading required package: hexbin Loading required package: fastmatch Loading required package: nlme Loading required package: GenomicRanges Loading required package: stats4 Loading required package: BiocGenerics Loading required package: parallel Attaching package: 'BiocGenerics' The following objects are masked from 'package:parallel': clusterApply, clusterApplyLB, clusterCall, clusterEvalQ, clusterExport, clusterMap, parApply, parCapply, parLapply, parLapplyLB, parRapply, parSapply, parSapplyLB The following objects are masked from 'package:bit64': match, order, rank The following objects are masked from 'package:stats': IQR, mad, sd, var, xtabs The following objects are masked from 'package:base': Filter, Find, Map, Position, Reduce, anyDuplicated, append, as.data.frame, basename, cbind, colMeans, colSums, colnames, dirname, do.call, duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted, lapply, lengths, mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank, rbind, rowMeans, rowSums, rownames, sapply, setdiff, sort, table, tapply, union, unique, unsplit, which, which.max, which.min Loading required package: S4Vectors Attaching package: 'S4Vectors' The following objects are masked from 'package:reshape': expand, rename The following object is masked from 'package:plyr': rename The following objects are masked from 'package:data.table': first, second The following object is masked from 'package:base': expand.grid Loading required package: IRanges Attaching package: 'IRanges' The following object is masked from 'package:nlme': collapse The following object is masked from 'package:plyr': desc The following object is masked from 'package:data.table': shift Loading required package: GenomeInfoDb Loading required package: xts Loading required package: zoo Attaching package: 'zoo' The following objects are masked from 'package:base': as.Date, as.Date.numeric Attaching package: 'xts' The following object is masked from 'package:S4Vectors': first The following objects are masked from 'package:data.table': first, last Loading required package: gdata gdata: read.xls support for 'XLS' (Excel 97-2004) files ENABLED. gdata: read.xls support for 'XLSX' (Excel 2007+) files ENABLED. Attaching package: 'gdata' The following objects are masked from 'package:xts': first, last The following object is masked from 'package:GenomicRanges': trim The following object is masked from 'package:IRanges': trim The following objects are masked from 'package:S4Vectors': first, first<- The following object is masked from 'package:BiocGenerics': combine The following object is masked from 'package:stats4': nobs The following objects are masked from 'package:data.table': first, last The following object is masked from 'package:stats': nobs The following object is masked from 'package:utils': object.size The following object is masked from 'package:base': startsWith Loading required package: caret Loading required package: lattice Loading required package: curl Loading required package: plm Loading required package: Formula Attaching package: 'plm' The following object is masked from 'package:data.table': between Loading required package: rmarkdown Attaching package: 'reshape2' The following objects are masked *by* 'package:data.table': dcast, melt Attaching package: 'reshape' The following objects are masked *by* 'package:S4Vectors': expand, rename The following objects are masked *by* 'package:plyr': rename, round_any The following object is masked *by* 'package:data.table': melt The following objects are masked *by* 'package:reshape2': colsplit, melt, recast Test 167 Error in (function (file = if (onefile) "Rplots.pdf" else "Rplot%03d.pdf", : cannot open file 'Rplots.pdf' Test 167.1 Error in (function (file = if (onefile) "Rplots.pdf" else "Rplot%03d.pdf", : cannot open file 'Rplots.pdf' Test 167.2 Error in (function (file = if (onefile) "Rplots.pdf" else "Rplot%03d.pdf", : cannot open file 'Rplots.pdf' Test 168 Error in (function (file = if (onefile) "Rplots.pdf" else "Rplot%03d.pdf", : cannot open file 'Rplots.pdf' Test 168.1 Error in (function (file = if (onefile) "Rplots.pdf" else "Rplot%03d.pdf", : cannot open file 'Rplots.pdf' Test 1373 ran without errors but failed check that x equals y: x = grepl("NAM\(1\)", out) [1] FALSE y = TRUE [1] TRUE 1 element mismatch Test 1543.3 ran without errors but failed check that x equals y: x = ans1 A X total.x A.y total.y 1 e 3 TRUE 9 FALSE 2 f 8 TRUE 2 FALSE 3 g 4 TRUE 1 FALSE 4 h 6 TRUE 8 FALSE 5 i 7 TRUE 5 FALSE 6 j 9 TRUE 3 FALSE y = ans2 A X total.x A total.y 1 e 3 TRUE 9 FALSE 2 f 8 TRUE 2 FALSE 3 g 4 TRUE 1 FALSE 4 h 6 TRUE 8 FALSE 5 i 7 TRUE 5 FALSE 6 j 9 TRUE 3 FALSE Running test id 1696 Error in eval(exprs[i], envir) : 7 errors out of 5946 (lastID=1751, endian==little, sizeof(long double)==16, sizeof(pointer)==8) in inst/tests/tests.Rraw on Tue May 1 19:30:25 2018. Search tests.Rraw for test numbers: 167, 167.1, 167.2, 168, 168.1, 1373, 1543.3. Calls: test.data.table -> sys.source -> eval -> eval Execution halted checking for unstated dependencies in vignettes ... OK checking package vignettes in ‘inst/doc’ ... OK checking re-building of vignette outputs ... [22s/27s] OK checking PDF version of manual ... OK DONE Status: 2 ERRORs </detail> — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub <#2825>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AHQQdX7zAo0gTXi4keRL57yfn3bf0IdZks5tulrFgaJpZM4TwYHb> .

[jangorecki]

Part of the log referred to an old error, see line in out

this is package ‘data.table’ version ‘1.10.4-3’

[jangorecki]

CRAN log has updated now with 1.11.0 results. 1 error remains so reopening.
https://www.r-project.org/nosvn/R.check/r-release-linux-x86_64/data.table-00check.html