Error(s) in re-building vignettes:
  ...
--- re-building ‘BigData.rnw’ using Sweave
Loading required package: DBI
Loading required package: RSQLite
Loading required package: ff
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:base’:

    xor

Attaching package ff
- getOption("fftempdir")=="/home/hornik/tmp/scratch/Rtmp6RX2q6"

- getOption("ffextension")=="ff"

- getOption("ffdrop")==TRUE

- getOption("fffinonexit")==TRUE

- getOption("ffpagesize")==65536

- getOption("ffcaching")=="mmnoflush"  -- consider "ffeachflush" if your system stalls on large writes

- getOption("ffbatchbytes")==16777216 -- consider a different value for tuning your system

- getOption("ffmaxbytes")==536870912 -- consider a different value for tuning your system


Attaching package: ‘ff’

The following objects are masked from ‘package:bit’:

    clone, clone.default, clone.list

The following objects are masked from ‘package:utils’:

    write.csv, write.csv2

The following objects are masked from ‘package:base’:

    is.factor, is.ordered

Loading required package: ffbase

Attaching package: ‘ffbase’

The following objects are masked from ‘package:ff’:

    [.ff, [.ffdf, [<-.ff, [<-.ffdf

The following objects are masked from ‘package:base’:

    %in%, table

RecordLinkage library
[c] IMBEI Mainz


Attaching package: ‘RecordLinkage’

The following object is masked from ‘package:ff’:

    clone

The following object is masked from ‘package:bit’:

    clone

The following object is masked from ‘package:base’:

    isFALSE

Warning: RSQLite::make.db.names() is deprecated, please switch to DBI::dbQuoteIdentifier().
Warning in result_fetch(res@ptr, n = n) :
  SQL statements must be issued with dbExecute() or dbSendStatement() instead of dbGetQuery() or dbSendQuery().
Warning in result_fetch(res@ptr, n = n) :
  SQL statements must be issued with dbExecute() or dbSendStatement() instead of dbGetQuery() or dbSendQuery().
Warning in result_fetch(res@ptr, n = n) :
  SQL statements must be issued with dbExecute() or dbSendStatement() instead of dbGetQuery() or dbSendQuery().
Warning in result_fetch(res@ptr, n = n) :
  SQL statements must be issued with dbExecute() or dbSendStatement() instead of dbGetQuery() or dbSendQuery().
Warning in result_fetch(res@ptr, n = n) :
  SQL statements must be issued with dbExecute() or dbSendStatement() instead of dbGetQuery() or dbSendQuery().
Warning in result_fetch(res@ptr, n = n) :
  SQL statements must be issued with dbExecute() or dbSendStatement() instead of dbGetQuery() or dbSendQuery().
Warning in result_fetch(res@ptr, n = n) :
  SQL statements must be issued with dbExecute() or dbSendStatement() instead of dbGetQuery() or dbSendQuery().
Warning in result_fetch(res@ptr, n = n) :
  SQL statements must be issued with dbExecute() or dbSendStatement() instead of dbGetQuery() or dbSendQuery().
Warning: call dbDisconnect() when finished working with a connection
--- finished re-building ‘BigData.rnw’

--- re-building ‘EVT.rnw’ using Sweave
Loading required package: DBI
Loading required package: RSQLite
Loading required package: ff
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:base’:

    xor

Attaching package ff
- getOption("fftempdir")=="/home/hornik/tmp/scratch/RtmpOM90HX"

- getOption("ffextension")=="ff"

- getOption("ffdrop")==TRUE

- getOption("fffinonexit")==TRUE

- getOption("ffpagesize")==65536

- getOption("ffcaching")=="mmnoflush"  -- consider "ffeachflush" if your system stalls on large writes

- getOption("ffbatchbytes")==16777216 -- consider a different value for tuning your system

- getOption("ffmaxbytes")==536870912 -- consider a different value for tuning your system


Attaching package: ‘ff’

The following objects are masked from ‘package:bit’:

    clone, clone.default, clone.list

The following objects are masked from ‘package:utils’:

    write.csv, write.csv2

The following objects are masked from ‘package:base’:

    is.factor, is.ordered

Loading required package: ffbase

Attaching package: ‘ffbase’

The following objects are masked from ‘package:ff’:

    [.ff, [.ffdf, [<-.ff, [<-.ffdf

The following objects are masked from ‘package:base’:

    %in%, table

RecordLinkage library
[c] IMBEI Mainz


Attaching package: ‘RecordLinkage’

The following object is masked from ‘package:ff’:

    clone

The following object is masked from ‘package:bit’:

    clone

The following object is masked from ‘package:base’:

    isFALSE

 ----------- FAILURE REPORT -------------- 
 --- failure: the condition has length > 1 ---
 --- srcref --- 
: 
 --- package (from environment) --- 
RecordLinkage
 --- call from context --- 
strcmpfun(left[, strcmp], right[, strcmp])
 --- call from argument --- 
if (class(str1) == "factor") str = as.character(str1)
 --- R stacktrace ---
where 1: strcmpfun(left[, strcmp], right[, strcmp])
where 2: compare.dedup(RLdata500, identity = identity.RLdata500, blockfld = list(1, 
    3, 5, 6, 7), strcmp = 1:4)
where 3: eval(expr, .GlobalEnv)
where 4: eval(expr, .GlobalEnv)
where 5: withVisible(eval(expr, .GlobalEnv))
where 6: doTryCatch(return(expr), name, parentenv, handler)
where 7: tryCatchOne(expr, names, parentenv, handlers[[1L]])
where 8: tryCatchList(expr, classes, parentenv, handlers)
where 9: tryCatch(expr, error = function(e) {
    call <- conditionCall(e)
    if (!is.null(call)) {
        if (identical(call[[1L]], quote(doTryCatch))) 
            call <- sys.call(-4L)
        dcall <- deparse(call)[1L]
        prefix <- paste("Error in", dcall, ": ")
        LONG <- 75L
        sm <- strsplit(conditionMessage(e), "\n")[[1L]]
        w <- 14L + nchar(dcall, type = "w") + nchar(sm[1L], type = "w")
        if (is.na(w)) 
            w <- 14L + nchar(dcall, type = "b") + nchar(sm[1L], 
                type = "b")
        if (w > LONG) 
            prefix <- paste0(prefix, "\n  ")
    }
    else prefix <- "Error : "
    msg <- paste0(prefix, conditionMessage(e), "\n")
    .Internal(seterrmessage(msg[1L]))
    if (!silent && isTRUE(getOption("show.error.messages"))) {
        cat(msg, file = outFile)
        .Internal(printDeferredWarnings())
    }
    invisible(structure(msg, class = "try-error", condition = e))
})
where 10: try(withVisible(eval(expr, .GlobalEnv)), silent = TRUE)
where 11: evalFunc(ce, options)
where 12: tryCatchList(expr, classes, parentenv, handlers)
where 13: tryCatch(evalFunc(ce, options), finally = {
    cat("\n")
    sink()
})
where 14: driver$runcode(drobj, chunk, chunkopts)
where 15: utils::Sweave(...)
where 16: engine$weave(file, quiet = quiet, encoding = enc)
where 17: doTryCatch(return(expr), name, parentenv, handler)
where 18: tryCatchOne(expr, names, parentenv, handlers[[1L]])
where 19: tryCatchList(expr, classes, parentenv, handlers)
where 20: tryCatch({
    engine$weave(file, quiet = quiet, encoding = enc)
    setwd(startdir)
    output <- find_vignette_product(name, by = "weave", engine = engine)
    if (!have.makefile && vignette_is_tex(output)) {
        texi2pdf(file = output, clean = FALSE, quiet = quiet)
        output <- find_vignette_product(name, by = "texi2pdf", 
            engine = engine)
    }
}, error = function(e) {
    OK <<- FALSE
    message(gettextf("Error: processing vignette '%s' failed with diagnostics:\n%s", 
        file, conditionMessage(e)))
})
where 21: tools:::.buildOneVignette("EVT.rnw", "/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/RecordLinkage.Rcheck/vign_test/RecordLinkage", 
    TRUE, FALSE, "EVT", "", "/home/hornik/tmp/scratch/RtmpWgNkIu/file730a551a1bad.rds")

 --- value of length: 2 type: logical ---
[1] FALSE FALSE
 --- function from context --- 
function (str1, str2, W_1 = 1/3, W_2 = 1/3, W_3 = 1/3, r = 0.5) 
{
    if (typeof(str1) != "character" && class(str1) != "factor") 
        stop(sprintf("Illegal data type: %s", typeof(str1)))
    if (class(str1) == "factor") 
        str = as.character(str1)
    if (typeof(str2) != "character" && class(str2) != "factor") 
        stop(sprintf("Illegal data type: %s", typeof(str2)))
    if (class(str2) == "factor") 
        str = as.character(str2)
    if ((is.array(str1) || is.array(str2)) && !identical(dim(str1), 
        dim(str2))) 
        stop("non-conformable arrays")
    if (length(str1) == 0 || length(str2) == 0) 
        return(double(0))
    ans <- .Call(".jarowinklerCALL", str1, str2, as.double(W_1), 
        as.double(W_2), as.double(W_3), as.double(r), PACKAGE = "RecordLinkage")
    if (any(is.na(str1), is.na(str2))) 
        ans[is.na(str1) | is.na(str2)] = NA
    if (is.array(str1)) 
        return(array(ans, dim(str1)))
    if (is.array(str2)) 
        return(array(ans, dim(str2)))
    return(ans)
}
<bytecode: 0x5591e638d088>
<environment: namespace:RecordLinkage>
 --- function search by body ---
Function jarowinkler in namespace RecordLinkage has this body.
 ----------- END OF FAILURE REPORT -------------- 
Fatal error: the condition has length > 1
--- re-building ‘Supervised.rnw’ using Sweave
Loading required package: DBI
Loading required package: RSQLite
Loading required package: ff
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:base’:

    xor

Attaching package ff
- getOption("fftempdir")=="/home/hornik/tmp/scratch/RtmpAhT0ZS"

- getOption("ffextension")=="ff"

- getOption("ffdrop")==TRUE

- getOption("fffinonexit")==TRUE

- getOption("ffpagesize")==65536

- getOption("ffcaching")=="mmnoflush"  -- consider "ffeachflush" if your system stalls on large writes

- getOption("ffbatchbytes")==16777216 -- consider a different value for tuning your system

- getOption("ffmaxbytes")==536870912 -- consider a different value for tuning your system


Attaching package: ‘ff’

The following objects are masked from ‘package:bit’:

    clone, clone.default, clone.list

The following objects are masked from ‘package:utils’:

    write.csv, write.csv2

The following objects are masked from ‘package:base’:

    is.factor, is.ordered

Loading required package: ffbase

Attaching package: ‘ffbase’

The following objects are masked from ‘package:ff’:

    [.ff, [.ffdf, [<-.ff, [<-.ffdf

The following objects are masked from ‘package:base’:

    %in%, table

RecordLinkage library
[c] IMBEI Mainz


Attaching package: ‘RecordLinkage’

The following object is masked from ‘package:ff’:

    clone

The following object is masked from ‘package:bit’:

    clone

The following object is masked from ‘package:base’:

    isFALSE

--- finished re-building ‘Supervised.rnw’

--- re-building ‘WeightBased.rnw’ using Sweave
Loading required package: DBI
Loading required package: RSQLite
Loading required package: ff
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:base’:

    xor

Attaching package ff
- getOption("fftempdir")=="/home/hornik/tmp/scratch/Rtmph8EhCh"

- getOption("ffextension")=="ff"

- getOption("ffdrop")==TRUE

- getOption("fffinonexit")==TRUE

- getOption("ffpagesize")==65536

- getOption("ffcaching")=="mmnoflush"  -- consider "ffeachflush" if your system stalls on large writes

- getOption("ffbatchbytes")==16777216 -- consider a different value for tuning your system

- getOption("ffmaxbytes")==536870912 -- consider a different value for tuning your system


Attaching package: ‘ff’

The following objects are masked from ‘package:bit’:

    clone, clone.default, clone.list

The following objects are masked from ‘package:utils’:

    write.csv, write.csv2

The following objects are masked from ‘package:base’:

    is.factor, is.ordered

Loading required package: ffbase

Attaching package: ‘ffbase’

The following objects are masked from ‘package:ff’:

    [.ff, [.ffdf, [<-.ff, [<-.ffdf

The following objects are masked from ‘package:base’:

    %in%, table

RecordLinkage library
[c] IMBEI Mainz


Attaching package: ‘RecordLinkage’

The following object is masked from ‘package:ff’:

    clone

The following object is masked from ‘package:bit’:

    clone

The following object is masked from ‘package:base’:

    isFALSE

--- finished re-building ‘WeightBased.rnw’

SUMMARY: processing the following file failed:
  ‘EVT.rnw’

Error: Vignette re-building failed.
Execution halted