CRAN Package Check Results for Package PairViz

Last updated on 2019-12-09 22:51:18 CET.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.3.2 7.38 67.43 74.81 WARN
r-devel-linux-x86_64-debian-gcc 1.3.2 5.91 55.29 61.20 OK
r-devel-linux-x86_64-fedora-clang 1.3.2 93.45 OK
r-devel-linux-x86_64-fedora-gcc 1.3.2 92.48 OK
r-devel-windows-ix86+x86_64 1.3.2 13.00 80.00 93.00 OK
r-devel-windows-ix86+x86_64-gcc8 1.3.2 15.00 81.00 96.00 OK
r-patched-linux-x86_64 1.3.2 5.79 63.43 69.22 OK
r-patched-solaris-x86 1.3.2 118.60 OK
r-release-linux-x86_64 1.3.2 6.76 64.22 70.98 OK
r-release-windows-ix86+x86_64 1.3.2 11.00 80.00 91.00 OK
r-release-osx-x86_64 1.3.2 OK
r-oldrel-windows-ix86+x86_64 1.3.2 7.00 73.00 80.00 OK
r-oldrel-osx-x86_64 1.3.2 OK

Check Details

Version: 1.3.2
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
     ...
    --- re-building 'MultipleComparisons.Rmd' using rmarkdown
     ----------- FAILURE REPORT --------------
     --- failure: the condition has length > 1 ---
     --- srcref ---
    :
     --- package (from environment) ---
    PairViz
     --- call from context ---
    order_best(weights)
     --- call from argument ---
    if (class(d) == "dist") {
     d <- as.matrix(d)
     dnames <- labels(d)
    } else dnames <- colnames(d)
     --- R stacktrace ---
    where 1: order_best(weights)
    where 2: eval(expr, envir, enclos)
    where 3: eval(expr, envir, enclos)
    where 4: withVisible(eval(expr, envir, enclos))
    where 5: withCallingHandlers(withVisible(eval(expr, envir, enclos)), warning = wHandler,
     error = eHandler, message = mHandler)
    where 6: handle(ev <- withCallingHandlers(withVisible(eval(expr, envir,
     enclos)), warning = wHandler, error = eHandler, message = mHandler))
    where 7: timing_fn(handle(ev <- withCallingHandlers(withVisible(eval(expr,
     envir, enclos)), warning = wHandler, error = eHandler, message = mHandler)))
    where 8: evaluate_call(expr, parsed$src[[i]], envir = envir, enclos = enclos,
     debug = debug, last = i == length(out), use_try = stop_on_error !=
     2L, keep_warning = keep_warning, keep_message = keep_message,
     output_handler = output_handler, include_timing = include_timing)
    where 9: evaluate::evaluate(...)
    where 10: evaluate(code, envir = env, new_device = FALSE, keep_warning = !isFALSE(options$warning),
     keep_message = !isFALSE(options$message), stop_on_error = if (options$error &&
     options$include) 0L else 2L, output_handler = knit_handlers(options$render,
     options))
    where 11: in_dir(input_dir(), evaluate(code, envir = env, new_device = FALSE,
     keep_warning = !isFALSE(options$warning), keep_message = !isFALSE(options$message),
     stop_on_error = if (options$error && options$include) 0L else 2L,
     output_handler = knit_handlers(options$render, options)))
    where 12: block_exec(params)
    where 13: call_block(x)
    where 14: process_group.block(group)
    where 15: process_group(group)
    where 16: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group),
     error = function(e) {
     setwd(wd)
     cat(res, sep = "\n", file = output %n% "")
     message("Quitting from lines ", paste(current_lines(i),
     collapse = "-"), " (", knit_concord$get("infile"),
     ") ")
     })
    where 17: process_file(text, output)
    where 18: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet,
     encoding = encoding)
    where 19: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(),
     ...)
    where 20: vweave_rmarkdown(...)
    where 21: engine$weave(file, quiet = quiet, encoding = enc)
    where 22: doTryCatch(return(expr), name, parentenv, handler)
    where 23: tryCatchOne(expr, names, parentenv, handlers[[1L]])
    where 24: tryCatchList(expr, classes, parentenv, handlers)
    where 25: tryCatch({
     engine$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 26: tools:::.buildOneVignette("MultipleComparisons.Rmd", "/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/PairViz.Rcheck/vign_test/PairViz",
     TRUE, FALSE, "MultipleComparisons", "UTF-8", "/tmp/RtmpkgdZnG/file651f2b773dd2.rds")
    
     --- value of length: 2 type: logical ---
    [1] FALSE FALSE
     --- function from context ---
    function (d, maxexact = 9, nsamples = 50000, path_weight = sum,
     cycle = FALSE, path_dir = path_cor, ...)
    {
     if (class(d) == "dist") {
     d <- as.matrix(d)
     dnames <- labels(d)
     }
     else dnames <- colnames(d)
     n <- nrow(d)
     if (n <= maxexact)
     perms <<- permutations(n, n)
     else perms <- t(sapply(1:nsamples, function(i) sample(n,
     n)))
     pathlens <- apply(perms, 1, function(h) path_weight(path_values(h,
     d, cycle)))
     o <- perms[which.min(pathlens), ]
     if (is.function(path_dir))
     o <- best_orientation(o, d, cycle, path_dir)
     return(o)
    }
    <bytecode: 0x64c1e28>
    <environment: namespace:PairViz>
     --- function search by body ---
    Function order_best in namespace PairViz has this body.
     ----------- END OF FAILURE REPORT --------------
    Quitting from lines 189-191 (MultipleComparisons.Rmd)
    Error: processing vignette 'MultipleComparisons.Rmd' failed with diagnostics:
    the condition has length > 1
    --- failed re-building 'MultipleComparisons.Rmd'
    
    --- re-building 'PairVizIntroduction.Rmd' using rmarkdown
     ----------- FAILURE REPORT --------------
     --- failure: the condition has length > 1 ---
     --- srcref ---
    :
     --- package (from environment) ---
    PairViz
     --- call from context ---
    order_best(d7, cycle = TRUE)
     --- call from argument ---
    if (class(d) == "dist") {
     d <- as.matrix(d)
     dnames <- labels(d)
    } else dnames <- colnames(d)
     --- R stacktrace ---
    where 1: order_best(d7, cycle = TRUE)
    where 2: eval(expr, envir, enclos)
    where 3: eval(expr, envir, enclos)
    where 4: withVisible(eval(expr, envir, enclos))
    where 5: withCallingHandlers(withVisible(eval(expr, envir, enclos)), warning = wHandler,
     error = eHandler, message = mHandler)
    where 6: handle(ev <- withCallingHandlers(withVisible(eval(expr, envir,
     enclos)), warning = wHandler, error = eHandler, message = mHandler))
    where 7: timing_fn(handle(ev <- withCallingHandlers(withVisible(eval(expr,
     envir, enclos)), warning = wHandler, error = eHandler, message = mHandler)))
    where 8: evaluate_call(expr, parsed$src[[i]], envir = envir, enclos = enclos,
     debug = debug, last = i == length(out), use_try = stop_on_error !=
     2L, keep_warning = keep_warning, keep_message = keep_message,
     output_handler = output_handler, include_timing = include_timing)
    where 9: evaluate::evaluate(...)
    where 10: evaluate(code, envir = env, new_device = FALSE, keep_warning = !isFALSE(options$warning),
     keep_message = !isFALSE(options$message), stop_on_error = if (options$error &&
     options$include) 0L else 2L, output_handler = knit_handlers(options$render,
     options))
    where 11: in_dir(input_dir(), evaluate(code, envir = env, new_device = FALSE,
     keep_warning = !isFALSE(options$warning), keep_message = !isFALSE(options$message),
     stop_on_error = if (options$error && options$include) 0L else 2L,
     output_handler = knit_handlers(options$render, options)))
    where 12: block_exec(params)
    where 13: call_block(x)
    where 14: process_group.block(group)
    where 15: process_group(group)
    where 16: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group),
     error = function(e) {
     setwd(wd)
     cat(res, sep = "\n", file = output %n% "")
     message("Quitting from lines ", paste(current_lines(i),
     collapse = "-"), " (", knit_concord$get("infile"),
     ") ")
     })
    where 17: process_file(text, output)
    where 18: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet,
     encoding = encoding)
    where 19: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(),
     ...)
    where 20: vweave_rmarkdown(...)
    where 21: engine$weave(file, quiet = quiet, encoding = enc)
    where 22: doTryCatch(return(expr), name, parentenv, handler)
    where 23: tryCatchOne(expr, names, parentenv, handlers[[1L]])
    where 24: tryCatchList(expr, classes, parentenv, handlers)
    where 25: tryCatch({
     engine$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 26: tools:::.buildOneVignette("PairVizIntroduction.Rmd", "/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/PairViz.Rcheck/vign_test/PairViz",
     TRUE, FALSE, "PairVizIntroduction", "UTF-8", "/tmp/RtmpkgdZnG/file651f6eb83232.rds")
    
     --- value of length: 2 type: logical ---
    [1] FALSE FALSE
     --- function from context ---
    function (d, maxexact = 9, nsamples = 50000, path_weight = sum,
     cycle = FALSE, path_dir = path_cor, ...)
    {
     if (class(d) == "dist") {
     d <- as.matrix(d)
     dnames <- labels(d)
     }
     else dnames <- colnames(d)
     n <- nrow(d)
     if (n <= maxexact)
     perms <<- permutations(n, n)
     else perms <- t(sapply(1:nsamples, function(i) sample(n,
     n)))
     pathlens <- apply(perms, 1, function(h) path_weight(path_values(h,
     d, cycle)))
     o <- perms[which.min(pathlens), ]
     if (is.function(path_dir))
     o <- best_orientation(o, d, cycle, path_dir)
     return(o)
    }
    <bytecode: 0x673fb18>
    <environment: namespace:PairViz>
     --- function search by body ---
    Function order_best in namespace PairViz has this body.
     ----------- END OF FAILURE REPORT --------------
    Quitting from lines 358-360 (PairVizIntroduction.Rmd)
    Error: processing vignette 'PairVizIntroduction.Rmd' failed with diagnostics:
    the condition has length > 1
    --- failed re-building 'PairVizIntroduction.Rmd'
    
    --- re-building 'pcp.Rmd' using rmarkdown
    --- finished re-building 'pcp.Rmd'
    
    SUMMARY: processing the following files failed:
     'MultipleComparisons.Rmd' 'PairVizIntroduction.Rmd'
    
    Error: Vignette re-building failed.
    Execution halted
Flavor: r-devel-linux-x86_64-debian-clang