CRAN Package Check Results for Package PSTR

Last updated on 2019-12-07 05:47:44 CET.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.2.4 7.92 73.90 81.82 ERROR
r-devel-linux-x86_64-debian-gcc 1.2.4 5.68 94.43 100.11 OK
r-devel-linux-x86_64-fedora-clang 1.2.4 157.26 OK
r-devel-linux-x86_64-fedora-gcc 1.2.4 156.06 OK
r-devel-windows-ix86+x86_64 1.2.4 15.00 149.00 164.00 OK
r-devel-windows-ix86+x86_64-gcc8 1.2.4 19.00 162.00 181.00 OK
r-patched-linux-x86_64 1.2.4 7.15 120.03 127.18 OK
r-patched-solaris-x86 1.2.4 259.20 OK
r-release-linux-x86_64 1.2.4 7.26 118.21 125.47 OK
r-release-windows-ix86+x86_64 1.2.4 18.00 141.00 159.00 OK
r-release-osx-x86_64 1.2.4 OK
r-oldrel-windows-ix86+x86_64 1.2.4 12.00 147.00 159.00 OK
r-oldrel-osx-x86_64 1.2.4 OK

Check Details

Version: 1.2.4
Check: examples
Result: ERROR
    Running examples in 'PSTR-Ex.R' failed
    The error most likely occurred in:
    
    > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
    > ### Name: LinTest
    > ### Title: Conduct the linearity tests.
    > ### Aliases: LinTest WCB_LinTest
    > ### Keywords: specification
    >
    > ### ** Examples
    >
    > pstr = NewPSTR(Hansen99, dep='inva', indep=4:20, indep_k=c('vala','debta','cfa','sales'),
    + tvars=c('vala'), iT=14) # create a new PSTR object
    >
    > pstr = LinTest(pstr)
     ----------- FAILURE REPORT --------------
     --- failure: the condition has length > 1 ---
     --- srcref ---
    :
     --- package (from environment) ---
    PSTR
     --- call from context ---
    LMTEST(iT = iT, iN = iN, vU = vU, mX = mX, mW = mW, mM = mM,
     s2 = s2, mX2 = mX2, invXX = invXX)
     --- call from argument ---
    if (class(invS1) == "try-error") {
     ttmp = svd(S1)
     invS1 = ttmp$u %*% diag(1/ttmp$d, length(ttmp$d)) %*% t(ttmp$u)
    }
     --- R stacktrace ---
    where 1: LMTEST(iT = iT, iN = iN, vU = vU, mX = mX, mW = mW, mM = mM,
     s2 = s2, mX2 = mX2, invXX = invXX)
    where 2: LinTest(pstr)
    
     --- value of length: 2 type: logical ---
    [1] FALSE FALSE
     --- function from context ---
    function (iT, iN, vU, mX, mW, mM, s2, mX2, invXX)
    {
     df1 = ncol(mW)
     df2 = iT * iN - df1 - iN - ncol(mX)
     mW2 = mM %*% mW
     mXW2 = crossprod(mX2, mW2)
     S1 = (crossprod(mW2) - t(mXW2) %*% invXX %*% mXW2) * s2
     invS1 = try(chol2inv(chol(S1)), silent = T)
     if (class(invS1) == "try-error") {
     ttmp = svd(S1)
     invS1 = ttmp$u %*% diag(1/ttmp$d, length(ttmp$d)) %*%
     t(ttmp$u)
     }
     vW2U = crossprod(mW2, vU)
     LM1_X = c(t(vW2U) %*% invS1 %*% vW2U)
     PV1_X = 1 - pchisq(LM1_X, df = df1)
     LM1_F = LM1_X * df2/(iT * iN * df1)
     PV1_F = 1 - pf(LM1_F, df1 = df1, df2 = df2)
     mZ = cbind(mX2, mW2)
     Delta = 0
     for (nter in 0:(iN - 1) * iT) {
     itmp = (nter + 1):(nter + iT)
     tmp = t(mZ[itmp, ]) %*% vU[itmp] %*% t(vU[itmp]) %*%
     mZ[itmp, ]
     Delta = Delta + tmp
     }
     tmp = cbind(-crossprod(mXW2, invXX), diag(1, df1))
     S2 = tmp %*% Delta %*% t(tmp)
     invS2 = try(chol2inv(chol(S2)), silent = T)
     if (class(invS2) == "try-error") {
     ttmp = svd(S2)
     invS2 = ttmp$u %*% diag(1/ttmp$d, length(ttmp$d)) %*%
     t(ttmp$u)
     }
     LM2_X = c(t(vW2U) %*% invS2 %*% vW2U)
     PV2_X = 1 - pchisq(LM2_X, df = df1)
     LM2_F = LM2_X * df2/(iT * iN * df1)
     PV2_F = 1 - pf(LM2_F, df1 = df1, df2 = df2)
     return(list(LM1_X = LM1_X, PV1_X = PV1_X, LM1_F = LM1_F,
     PV1_F = PV1_F, LM2_X = LM2_X, PV2_X = PV2_X, LM2_F = LM2_F,
     PV2_F = PV2_F))
    }
    <bytecode: 0x6154478>
    <environment: namespace:PSTR>
     --- function search by body ---
    Function LMTEST in namespace PSTR has this body.
     ----------- END OF FAILURE REPORT --------------
    Error in if (class(invS1) == "try-error") { :
     the condition has length > 1
    Calls: LinTest -> LMTEST
    Execution halted
Flavor: r-devel-linux-x86_64-debian-clang

Version: 1.2.4
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
     ...
    --- re-building 'pstr-vignette.Rmd' using rmarkdown
     ----------- FAILURE REPORT --------------
     --- failure: the condition has length > 1 ---
     --- srcref ---
    :
     --- package (from environment) ---
    PSTR
     --- call from context ---
    LMTEST(iT = iT, iN = iN, vU = vU, mX = mX, mW = mW, mM = mM,
     s2 = s2, mX2 = mX2, invXX = invXX)
     --- call from argument ---
    if (class(invS1) == "try-error") {
     ttmp = svd(S1)
     invS1 = ttmp$u %*% diag(1/ttmp$d, length(ttmp$d)) %*% t(ttmp$u)
    }
     --- R stacktrace ---
    where 1: LMTEST(iT = iT, iN = iN, vU = vU, mX = mX, mW = mW, mM = mM,
     s2 = s2, mX2 = mX2, invXX = invXX)
    where 2: LinTest(use = pstr)
    where 3: eval(expr, envir, enclos)
    where 4: eval(expr, envir, enclos)
    where 5: withVisible(eval(expr, envir, enclos))
    where 6: withCallingHandlers(withVisible(eval(expr, envir, enclos)), warning = wHandler,
     error = eHandler, message = mHandler)
    where 7: handle(ev <- withCallingHandlers(withVisible(eval(expr, envir,
     enclos)), warning = wHandler, error = eHandler, message = mHandler))
    where 8: timing_fn(handle(ev <- withCallingHandlers(withVisible(eval(expr,
     envir, enclos)), warning = wHandler, error = eHandler, message = mHandler)))
    where 9: evaluate_call(expr, parsed$src[[i]], envir = envir, enclos = enclos,
     debug = debug, last = i == length(out), use_try = stop_on_error !=
     2L, keep_warning = keep_warning, keep_message = keep_message,
     output_handler = output_handler, include_timing = include_timing)
    where 10: evaluate::evaluate(...)
    where 11: evaluate(code, envir = env, new_device = FALSE, keep_warning = !isFALSE(options$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: 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$render, options)))
    where 13: block_exec(params)
    where 14: call_block(x)
    where 15: process_group.block(group)
    where 16: process_group(group)
    where 17: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group),
     error = function(e) {
     setwd(wd)
     cat(res, sep = "\n", file = output %n% "")
     message("Quitting from lines ", paste(current_lines(i),
     collapse = "-"), " (", knit_concord$get("infile"),
     ") ")
     })
    where 18: process_file(text, output)
    where 19: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet,
     encoding = encoding)
    where 20: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(),
     ...)
    where 21: vweave_rmarkdown(...)
    where 22: engine$weave(file, quiet = quiet, encoding = enc)
    where 23: doTryCatch(return(expr), name, parentenv, handler)
    where 24: tryCatchOne(expr, names, parentenv, handlers[[1L]])
    where 25: tryCatchList(expr, classes, parentenv, handlers)
    where 26: tryCatch({
     engine$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)
     }
     outputs <- c(outputs, output)
    }, error = function(e) {
     thisOK <<- FALSE
     fails <<- c(fails, file)
     message(gettextf("Error: processing vignette '%s' failed with diagnostics:\n%s",
     file, conditionMessage(e)))
    })
    where 27: tools:::buildVignettes(dir = "/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/PSTR.Rcheck/vign_test/PSTR",
     ser_elibs = "/tmp/RtmpfUPxbr/file699d2ebcae33.rds")
    
     --- value of length: 2 type: logical ---
    [1] FALSE FALSE
     --- function from context ---
    function (iT, iN, vU, mX, mW, mM, s2, mX2, invXX)
    {
     df1 = ncol(mW)
     df2 = iT * iN - df1 - iN - ncol(mX)
     mW2 = mM %*% mW
     mXW2 = crossprod(mX2, mW2)
     S1 = (crossprod(mW2) - t(mXW2) %*% invXX %*% mXW2) * s2
     invS1 = try(chol2inv(chol(S1)), silent = T)
     if (class(invS1) == "try-error") {
     ttmp = svd(S1)
     invS1 = ttmp$u %*% diag(1/ttmp$d, length(ttmp$d)) %*%
     t(ttmp$u)
     }
     vW2U = crossprod(mW2, vU)
     LM1_X = c(t(vW2U) %*% invS1 %*% vW2U)
     PV1_X = 1 - pchisq(LM1_X, df = df1)
     LM1_F = LM1_X * df2/(iT * iN * df1)
     PV1_F = 1 - pf(LM1_F, df1 = df1, df2 = df2)
     mZ = cbind(mX2, mW2)
     Delta = 0
     for (nter in 0:(iN - 1) * iT) {
     itmp = (nter + 1):(nter + iT)
     tmp = t(mZ[itmp, ]) %*% vU[itmp] %*% t(vU[itmp]) %*%
     mZ[itmp, ]
     Delta = Delta + tmp
     }
     tmp = cbind(-crossprod(mXW2, invXX), diag(1, df1))
     S2 = tmp %*% Delta %*% t(tmp)
     invS2 = try(chol2inv(chol(S2)), silent = T)
     if (class(invS2) == "try-error") {
     ttmp = svd(S2)
     invS2 = ttmp$u %*% diag(1/ttmp$d, length(ttmp$d)) %*%
     t(ttmp$u)
     }
     LM2_X = c(t(vW2U) %*% invS2 %*% vW2U)
     PV2_X = 1 - pchisq(LM2_X, df = df1)
     LM2_F = LM2_X * df2/(iT * iN * df1)
     PV2_F = 1 - pf(LM2_F, df1 = df1, df2 = df2)
     return(list(LM1_X = LM1_X, PV1_X = PV1_X, LM1_F = LM1_F,
     PV1_F = PV1_F, LM2_X = LM2_X, PV2_X = PV2_X, LM2_F = LM2_F,
     PV2_F = PV2_F))
    }
    <bytecode: 0x65d21a8>
    <environment: namespace:PSTR>
     --- function search by body ---
    Function LMTEST in namespace PSTR has this body.
     ----------- END OF FAILURE REPORT --------------
    Quitting from lines 89-91 (pstr-vignette.Rmd)
    Error: processing vignette 'pstr-vignette.Rmd' failed with diagnostics:
    the condition has length > 1
    --- failed re-building 'pstr-vignette.Rmd'
    
    SUMMARY: processing the following file failed:
     'pstr-vignette.Rmd'
    
    Error: Vignette re-building failed.
    Execution halted
Flavor: r-devel-linux-x86_64-debian-clang