* using log directory ‘/Users/ripley/R/packages/tests-Accelerate/FDboost.Rcheck’ * using R Under development (unstable) (2023-09-17 r85158) * using platform: aarch64-apple-darwin22.6.0 * R was compiled by Apple clang version 15.0.0 (clang-1500.0.40.1) GNU Fortran (GCC) 12.2.0 * running under: macOS Ventura 13.5.2 * using session charset: UTF-8 * using option ‘--no-stop-on-test-error’ * checking for file ‘FDboost/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘FDboost’ version ‘1.1-2’ * package encoding: UTF-8 * 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 whether package ‘FDboost’ can be installed ... OK * checking installed package size ... 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 whether startup messages can be suppressed ... 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 ... OK * checking Rd files ... OK * checking Rd metadata ... 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 contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... OK * checking data for ASCII and uncompressed saves ... OK * checking sizes of PDF files under ‘inst/doc’ ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘factorize_test_irregular.R’ Running ‘factorize_test_regular.R’ Running ‘general_tests.R’ ERROR Running the tests in ‘tests/general_tests.R’ failed. Complete output: > > > library(FDboost) Loading required package: mboost Loading required package: parallel Loading required package: stabs This is FDboost 1.1-2. > library(gamboostLSS) Attaching package: 'gamboostLSS' The following object is masked from 'package:stats': model.weights > > # print(sessionInfo()) > > # simulated data ---------------------------------------------------------- > > > if(require(refund)){ + + ## simulate a small data set + print("simulate data") + set.seed(230) + pffr_data <- pffrSim(n = 25, nxgrid = 21, nygrid = 19) + pffr_data$X1 <- scale(pffr_data$X1, scale = FALSE) + + dat <- as.list(pffr_data) + dat$tvals <- attr(pffr_data, "yindex") + dat$svals <- attr(pffr_data, "xindex") + + dat$Y_scalar <- dat$Y[ , 10] + + dat$Y_long <- c(dat$Y) + dat$tvals_long <- rep(dat$tvals, each = nrow(dat$Y)) + dat$id_long <- rep(1:nrow(dat$Y), ncol(dat$Y)) + + # second functional covariate + dat$s2 <- seq(0, 1, l = 15) + dat$X2 <- I(matrix(rnorm(25 * 15), nrow = 25)) + dat$X2 <- scale(dat$X2, scale = FALSE) + + + # model fit --------------------------------------------------------------- + + print("model fit") + + ## response matrix for response observed on one common grid + m <- FDboost(Y ~ 1 + bhist(X1, svals, tvals, knots = 10, df = 6) + + bsignal(X1, svals, knots = 6, df = 3) + + bbsc(xsmoo, knots = 6, df = 3) + + bolsc(xte1, df = 3) + + brandomc(xte2, df = 3), + timeformula = ~ bbs(tvals, knots = 9, df = 2, differences = 1), + control = boost_control(mstop = 10), data = dat) + + ## response in long format + ml <- FDboost(Y_long ~ 1 + bhist(X1, svals, tvals_long, knots = 6, df = 12) + + bsignal(X1, svals, knots = 6, df = 4) + + bbsc(xsmoo, knots = 6, df = 4) + + bolsc(xte1, df = 4) + + brandomc(xte2, df = 4), + timeformula = ~ bbs(tvals_long, knots = 8, df = 3, differences = 1), + id = ~ id_long, + offset_control = o_control(k_min = 10), + control = boost_control(mstop = 10), data = dat) + + ## scalar response + ms <- FDboost(Y_scalar ~ 1 + bsignal(X1, svals, knots = 6, df = 2) + + bbs(xsmoo, knots = 6, df = 2, differences = 1) + + bols(xte1, df = 2) + + bols(xte2, df = 2) + + bols(xfactor, df = 2), + timeformula = NULL, + control = boost_control(mstop = 50), data = dat) + + ## scalar response and interaction effect between two functional variables + ms_funint <- FDboost(Y_scalar ~ 1 + + bsignal(X1, svals, knots = 9, df = 3) %X% bsignal(X2, s2, knots = 9, df = 3), + timeformula = NULL, + control = boost_control(mstop = 50), data = dat) + + ## GAMLSS with functional response + mlss <- FDboostLSS(Y ~ 1 + bsignal(X1, svals, knots = 6, df = 3) + + bbsc(xsmoo, knots = 6, df = 3) + + bolsc(xte1, df = 3), + timeformula = ~ bbs(tvals, knots = 9, df = 3, differences = 1), + control = boost_control(mstop = 20), data = dat, + method = "noncyclic") + + ## GAMLSS with scalar response + mslss <- FDboostLSS(Y_scalar ~ 1 + bsignal(X1, svals, knots = 6, df = 3) + + bbs(xsmoo, knots = 6, df = 3, differences = 1), + timeformula = NULL, + control = boost_control(mstop = 50), data = dat, + method = "noncyclic") + + ## response matrix with factor + continuous time variable + + # linear array model implemented only for matrices + # => tvals and factor for dimensions have to be flattened + dat2D <- with(dat, expand.grid( + tvals = tvals, + xfactor = factor(2:3) + )) + dat2D <- as.list(dat2D[order(dat2D$xfactor), ]) + dat2D$Y <- cbind( + dat$Y[dat$xfactor == "2", ], + dat$Y[dat$xfactor == "3", ] + ) + dat2D$xsmoo <- dat$xsmoo[dat$xfactor == "2"] + + m2D <- FDboost(Y ~ bbsc(xsmoo), + timeformula = ~ bols(xfactor) %X% bbs(tvals), + control = boost_control(mstop = 20), + data = dat2D) + + + # test some methods and utility functions -------------------------------- + + ## test plot() + print("plot effects") + par(mfrow = c(1,1)) + plot(m, ask = FALSE) + plot(ml, ask = FALSE) + plot(ms, ask = FALSE) + plot(mlss$mu, ask = FALSE) + plot(mlss$sigma, ask = FALSE) + + ## test applyFolds() + print("run applyFolds") + set.seed(123) + applyFolds(m, folds = cv(rep(1, length(unique(m$id))), B = 2), grid = 0:5) + #applyFolds(ml, folds = cv(rep(1, length(unique(ml$id))), B = 2), grid = 0:5) + #applyFolds(ms, folds = cv(rep(1, length(unique(ms$id))), B = 2), grid = 0:5) + + ## test cvrisk() + print("run cvrisk") + set.seed(123) + cvrisk(m, folds = cvLong(id = m$id, weights = model.weights(m), B = 2), grid = 0:5) + cvrisk(ml, folds = cvLong(id = ml$id, weights = model.weights(ml), B = 2), grid = 0:5) + cvrisk(ms, folds = cvLong(id = ms$id, weights = model.weights(ms), B = 2), grid = 0:5) + cvrisk(ms_funint, folds = cvLong(id = ms$id, weights = model.weights(ms), B = 2), grid = 0:5) + + cvrisk(mlss, folds = cv(model.weights(mlss[[1]]), B = 2), + grid = 1:5, trace = FALSE) + cvrisk(mslss, folds = cv(model.weights(mslss[[1]]), B = 2), + grid = 1:5, trace = FALSE) + + cvrisk(m2D, folds = cv(model.weights(m2D), B = 2), + grid = 1:5) + + ## test stabsel (use very small number of folds, B = 10, to speed up testing) + print("run stabsel") + stabsel(m, cutoff=0.8, PFER = 0.1*length(m$baselearner), sampling.type = "SS", eval = TRUE, B = 3) + stabsel(m, cutoff=0.8, PFER = 0.1*length(m$baselearner), sampling.type = "SS", eval = TRUE, B = 3, + refitSmoothOffset = FALSE) + + ## FIXME: this stabsel() should also work with refitSmoothOffset = TRUE + stabsel(ml, cutoff=0.8, PFER = 0.1*length(ml$baselearner), sampling.type = "SS", eval = TRUE, B = 3, + refitSmoothOffset = FALSE) + stabsel(ms, cutoff=0.8, PFER = 0.1*length(ms$baselearner), sampling.type = "SS", eval = TRUE, B = 3) + ## FIXME: this is broken again + ## fixed in gamboostLSS package on github with commit 4989474 + ##stabsel(mlss, cutoff=0.8, PFER = 0.1*length(mlss$mu$baselearner), sampling.type = "SS", eval = TRUE, B = 3) + ##stabsel(mslss, cutoff=0.8, PFER = 0.1*length(mslss$mu$baselearner), sampling.type = "SS", eval = TRUE, B = 3) + + + ## test predict with newdata + print("predict with new data") + pred <- predict(m, newdata = dat) + ## for this predict() with newdata, you need a data.frame where the irregular time of y fits with X + ## pred <- predict(ml, newdata = dat) + pred <- predict(ms, newdata = dat) + pred <- predict(ms_funint, newdata = dat) + pred <- predict(mlss, newdata = dat) + pred <- predict(mslss, newdata = dat) + + } Loading required package: refund [1] "simulate data" [1] "model fit" Use a smooth offset. Use a smooth offset for irregular data. No smooth offsets over time are used, just global scalar offsets. No integration weights are used to compute the loss for the functional response. [1] "plot effects" [1] "run applyFolds" *** caught segfault *** address 0x110, cause 'invalid permissions' Traceback: 1: La.svd(x, nu, nv) 2: svd(crossprod(Rm, dmat) %*% Rm, nu = 0, nv = 0) 3: doTryCatch(return(expr), name, parentenv, handler) 4: tryCatchOne(expr, names, parentenv, handlers[[1L]]) 5: tryCatchList(expr, classes, parentenv, handlers) 6: 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, nlines = 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))}) 7: try(svd(crossprod(Rm, dmat) %*% Rm, nu = 0, nv = 0)$d) 8: df2lambda(X, df = args$df, lambda = args$lambda, dmat = K, weights = w, XtX = XtX) 9: object$dpp(weights) 10: dpp.blg(X[[i]], ...) 11: FUN(X[[i]], ...) 12: lapply(blg, dpp, weights = weights) 13: mboost_fit(bl, response = response, weights = weights, offset = offset, family = family, control = control, oobweights = oobweights, ...) 14: mboost(fm, data = data, weights = w, offset = offset, ...) 15: FDboost(formula = Y ~ 1 + bhist(X1, svals, tvals, knots = 10, df = 6) + bsignal(X1, svals, knots = 6, df = 3) + bbsc(xsmoo, knots = 6, df = 3) + bolsc(xte1, df = 3) + brandomc(xte2, df = 3), timeformula = ~bbs(tvals, knots = 9, df = 2, differences = 1), control = list(mstop = 10, nu = 0.1, risk = "inbag", stopintern = FALSE, center = TRUE, trace = FALSE), data = list(X1 = c(-0.384847598069494, 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-0.0640761212458992, -0.0640761212458992, 1.66967841532004, -0.967266027908846, -0.967266027908846, -0.829341365126664, -0.0770599273382019, -0.132711538630847, -0.132711538630847, -1.01347414154902, -0.980085379933654, -0.100268039262386, -0.100268039262386, -0.397138397437131, -0.397138397437131, -0.397138397437131, 0.0998999307605635, -0.166277230051912, -0.435807645806459 ), xte2 = c(0.165208465776849, 0.165208465776849, 0.46315273045661, 1.06993012661437, 1.06993012661437, -0.156651842902546, -0.156651842902546, -0.156651842902546, 0.156569007297343, -0.551799774632661, -0.551799774632661, -0.281543982899657, 1.48072466486686, 1.05404603663137, 1.05404603663137, -0.936917694826534, -0.910985596559708, -0.949702949591695, -0.949702949591695, -0.615308105970782, -0.615308105970782, -0.615308105970782, 1.60927596055172, 0.956450973560131, 0.387620826324863), svals = c(0, 0.05, 0.1, 0.15, 0.2, 0.25, 0.3, 0.35, 0.4, 0.45, 0.5, 0.55, 0.6, 0.65, 0.7, 0.75, 0.8, 0.85, 0.9, 0.95, 1), tvals = c(0, 0.0555555555555556, 0.111111111111111, 0.166666666666667, 0.222222222222222, 0.277777777777778, 0.333333333333333, 0.388888888888889, 0.444444444444444, 0.5, 0.555555555555556, 0.611111111111111, 0.666666666666667, 0.722222222222222, 0.777777777777778, 0.833333333333333, 0.888888888888889, 0.944444444444444, 1), object_id = NULL)) 16: eval(call) 17: eval(call) 18: withCallingHandlers(expr, message = function(c) if (inherits(c, classes)) tryInvokeRestart("muffleMessage")) 19: suppressMessages(eval(call)) 20: withCallingHandlers(suppressMessages(eval(call)), warning = h) 21: fitfct(weights = weights, oobweights = oobweights) 22: dummyfct(weights = folds[, i], oobweights = OOBweights[, i]) 23: doTryCatch(return(expr), name, parentenv, handler) 24: tryCatchOne(expr, names, parentenv, handlers[[1L]]) 25: tryCatchList(expr, classes, parentenv, handlers) 26: 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, nlines = 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))}) 27: try(dummyfct(weights = folds[, i], oobweights = OOBweights[, i]), silent = TRUE) 28: FUN(X[[i]], ...) 29: eval(expr, env) 30: doTryCatch(return(expr), name, parentenv, handler) 31: tryCatchOne(expr, names, parentenv, handlers[[1L]]) 32: tryCatchList(expr, classes, parentenv, handlers) 33: 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, nlines = 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))}) 34: try(eval(expr, env), silent = TRUE) 35: serialize(what, NULL, xdr = FALSE) 36: sendMaster(try(eval(expr, env), silent = TRUE), FALSE) 37: mcparallel(FUN(X[[i]], ...), name = names(X)[i], mc.set.seed = mc.set.seed, silent = mc.silent) 38: FUN(X[[i]], ...) 39: lapply(seq_along(X), function(i) mcparallel(FUN(X[[i]], ...), name = names(X)[i], mc.set.seed = mc.set.seed, silent = mc.silent)) 40: papply(1:ncol(folds), function(i) try(dummyfct(weights = folds[, i], oobweights = OOBweights[, i]), silent = TRUE), mc.preschedule = mc.preschedule, ...) 41: applyFolds(m, folds = cv(rep(1, length(unique(m$id))), B = 2), grid = 0:5) An irrecoverable exception occurred. R is aborting now ... *** caught segfault *** address 0x110, cause 'invalid permissions' Traceback: 1: La.svd(x, nu, nv) 2: svd(crossprod(Rm, dmat) %*% Rm, nu = 0, nv = 0) 3: doTryCatch(return(expr), name, parentenv, handler) 4: tryCatchOne(expr, names, parentenv, handlers[[1L]]) 5: tryCatchList(expr, classes, parentenv, handlers) 6: tryCatch(expr, error = function(e) { call <- conditionCall(e) if (!is.null(call)) { if (identical(call[[1L]], quote(doTryCatch))) call <- sys.call(-4L) dcall <- deparse(call, nlines = 1L) prefix <- paste("Error in", dcall, ": ") LONG <- 75L sm <- strsplit(conditionMessage(e), "\n")[[1L]] w <- 14L + nchar(dcall, type = "w") + nchar(sm[1L], type = "w") if (is.na(w)) w <- 14L + nchar(dcall, type = "b") + nchar(sm[1L], type = "b") if (w > LONG) prefix <- paste0(prefix, "\n ") } else prefix <- "Error : " msg <- paste0(prefix, conditionMessage(e), "\n") .Internal(seterrmessage(msg[1L])) if (!silent && isTRUE(getOption("show.error.messages"))) { cat(msg, file = outFile) .Internal(printDeferredWarnings()) } invisible(structure(msg, class = "try-error", condition = e))}) 7: try(svd(crossprod(Rm, dmat) %*% Rm, nu = 0, nv = 0)$d) 8: df2lambda(X, df = args$df, lambda = args$lambda, dmat = K, weights = w, XtX = XtX) 9: object$dpp(weights) 10: dpp.blg(X[[i]], ...) 11: FUN(X[[i]], ...) 12: lapply(blg, dpp, weights = weights) 13: mboost_fit(bl, response = response, weights = weights, offset = offset, family = family, control = control, oobweights = oobweights, ...) 14: mboost(fm, data = data, weights = w, offset = offset, ...) 15: FDboost(formula = Y ~ 1 + bhist(X1, svals, tvals, knots = 10, df = 6) + bsignal(X1, svals, knots = 6, df = 3) + bbsc(xsmoo, knots = 6, df = 3) + bolsc(xte1, df = 3) + brandomc(xte2, df = 3), timeformula = ~bbs(tvals, knots = 9, df = 2, differences = 1), control = list(mstop = 10, nu = 0.1, risk = "inbag", stopintern = FALSE, center = TRUE, trace = FALSE), data = list(X1 = c(0.199640973727573, -0.384847598069494, 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-0.0770599273382019, -0.355420964782674, -1.01347414154902, 1.09468338499145, -2.14041259297538, -0.397138397437131, -0.166277230051912, -1.51762356607987, -0.435807645806459, -0.435807645806459, -0.435807645806459, -1.04935338453092, -1.04935338453092, -1.04935338453092), xte2 = c(0.255728440380257, 0.165208465776849, 0.46315273045661, 1.06993012661437, 0.156569007297343, 0.156569007297343, 0.156569007297343, -0.551799774632661, -0.551799774632661, -0.281543982899657, 1.48072466486686, 1.48072466486686, 0.134508992127929, -0.936917694826534, 1.18258861189291, 1.20039445269639, -0.615308105970782, 0.956450973560131, -0.139363949620574, 0.387620826324863, 0.387620826324863, 0.387620826324863, -1.41843687929639, -1.41843687929639, -1.41843687929639), svals = c(0, 0.05, 0.1, 0.15, 0.2, 0.25, 0.3, 0.35, 0.4, 0.45, 0.5, 0.55, 0.6, 0.65, 0.7, 0.75, 0.8, 0.85, 0.9, 0.95, 1), tvals = c(0, 0.0555555555555556, 0.111111111111111, 0.166666666666667, 0.222222222222222, 0.277777777777778, 0.333333333333333, 0.388888888888889, 0.444444444444444, 0.5, 0.555555555555556, 0.611111111111111, 0.666666666666667, 0.722222222222222, 0.777777777777778, 0.833333333333333, 0.888888888888889, 0.944444444444444, 1), object_id = NULL)) 16: eval(call) 17: eval(call) 18: withCallingHandlers(expr, message = function(c) if (inherits(c, classes)) tryInvokeRestart("muffleMessage")) 19: suppressMessages(eval(call)) 20: withCallingHandlers(suppressMessages(eval(call)), warning = h) 21: fitfct(weights = weights, oobweights = oobweights) 22: dummyfct(weights = folds[, i], oobweights = OOBweights[, i]) 23: doTryCatch(return(expr), name, parentenv, handler) 24: tryCatchOne(expr, names, parentenv, handlers[[1L]]) 25: tryCatchList(expr, classes, parentenv, handlers) 26: 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, nlines = 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))}) 27: try(dummyfct(weights = folds[, i], oobweights = OOBweights[, i]), silent = TRUE) 28: FUN(X[[i]], ...) 29: eval(expr, env) 30: doTryCatch(return(expr), name, parentenv, handler) 31: tryCatchOne(expr, names, parentenv, handlers[[1L]]) 32: tryCatchList(expr, classes, parentenv, handlers) 33: 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, nlines = 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))}) 34: try(eval(expr, env), silent = TRUE) 35: serialize(what, NULL, xdr = FALSE) 36: sendMaster(try(eval(expr, env), silent = TRUE), FALSE) 37: mcparallel(FUN(X[[i]], ...), name = names(X)[i], mc.set.seed = mc.set.seed, silent = mc.silent) 38: FUN(X[[i]], ...) 39: lapply(seq_along(X), function(i) mcparallel(FUN(X[[i]], ...), name = names(X)[i], mc.set.seed = mc.set.seed, silent = mc.silent)) 40: papply(1:ncol(folds), function(i) try(dummyfct(weights = folds[, i], oobweights = OOBweights[, i]), silent = TRUE), mc.preschedule = mc.preschedule, ...) 41: applyFolds(m, folds = cv(rep(1, length(unique(m$id))), B = 2), grid = 0:5) An irrecoverable exception occurred. R is aborting now ... Error in dimnames(x) <- dn : length of 'dimnames' [2] not equal to array extent Calls: applyFolds -> colnames<- In addition: Warning messages: 1: In .qr.rank.def.warn(r) : matrix is structurally rank deficient; using augmented matrix with additional 56 row(s) of zeros 2: In .qr.rank.def.warn(r) : matrix is structurally rank deficient; using augmented matrix with additional 21 row(s) of zeros 3: In FDboost(Y ~ bbsc(xsmoo), timeformula = ~bols(xfactor) %X% bbs(tvals), : More than one variable specified in time formula, 'plot' and other convenience functions potentially not designed for that, yet. 4: In FDboost(Y ~ bbsc(xsmoo), timeformula = ~bols(xfactor) %X% bbs(tvals), : For timeformulas with multiple variables dfs are not checked automatically. Please make sure that all base-learner df are equal to ensure a fair selection. 5: In FDboost(Y ~ bbsc(xsmoo), timeformula = ~bols(xfactor) %X% bbs(tvals), : In case of factor or multiple time variables no default offset implemented, yet. offset is set to 0. 6: In mccollect(jobs) : 2 parallel jobs did not deliver results Execution halted * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... OK * checking re-building of vignette outputs ... [16s/16s] OK * checking PDF version of manual ... OK * checking HTML version of manual ... OK * checking for detritus in the temp directory ... OK * DONE Status: 1 ERROR See ‘/Users/ripley/R/packages/tests-Accelerate/FDboost.Rcheck/00check.log’ for details. 71.64 real 58.64 user 8.04 sys