* using log directory ‘/data/blackswan/ripley/R/packages/tests-devel/VariantScan.Rcheck’ * using R Under development (unstable) (2022-08-09 r82699) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * checking for file ‘VariantScan/DESCRIPTION’ ... OK * this is package ‘VariantScan’ version ‘1.1.9’ * 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 ‘VariantScan’ can be installed ... [11s/11s] 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 dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘gam’ All declared Imports should be used. * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... [14s/14s] 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 installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK * checking examples with --run-donttest ... [59s/63s] ERROR Running examples in ‘VariantScan-Ex.R’ failed The error most likely occurred in: > ### Name: gamLoessScan > ### Title: Variants (Biomarkers, e.g., genomic (genetic loci), > ### transcriptomic (gene expression), epigenomic (methylations), > ### proteomic(protein), metabolomic (metabolites) variants) Scanning and > ### Association Tests Using Generalized Additive Model with Local > ### Polynomial Regression (LOESS). > ### Aliases: gamLoessScan > ### Keywords: gamLoessScan > > ### ** Examples > > # not run > ## No test: > f <- system.file('extdata',package='VariantScan') > infile <- file.path(f, "sim1.csv") > geno=read.csv(infile) > > traitq=geno[,14] > genotype=geno[,-c(1:14)] > PCs=prcomp(genotype) > test=gamLoessScan(genotype =genotype,traits =(traitq),U=PCs$x[,1:2],n_hyperparameter_search=5) Target tait-- trainingTuning hyperparameters --. _/Searching_5_parameter combinations from hyperparameter spaceLoading required package: ggplot2 Loading required package: lattice Loading required package: splines Loading required package: foreach Loaded gam 1.20.2 Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in gam.lo(data[["lo(PC1, span = 0.572853363351896, degree = 1)"]], : eval -4.5184 Warning in gam.lo(data[["lo(PC1, span = 0.572853363351896, degree = 1)"]], : lowerlimit -4.4671 Warning in gam.lo(data[["lo(PC1, span = 0.572853363351896, degree = 1)"]], : extrapolation not allowed with blending Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in gam.lo(data[["lo(PC1, span = 0.908207789994776, degree = 2)"]], : eval -4.5184 Warning in gam.lo(data[["lo(PC1, span = 0.908207789994776, degree = 2)"]], : lowerlimit -4.4671 Warning in gam.lo(data[["lo(PC1, span = 0.908207789994776, degree = 2)"]], : extrapolation not allowed with blending Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in gam.lo(data[["lo(PC1, span = 0.201681931037456, degree = 2)"]], : eval -4.5184 Warning in gam.lo(data[["lo(PC1, span = 0.201681931037456, degree = 2)"]], : lowerlimit -4.4671 Warning in gam.lo(data[["lo(PC1, span = 0.201681931037456, degree = 2)"]], : extrapolation not allowed with blending Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in gam.lo(data[["lo(PC1, span = 0.898389684967697, degree = 1)"]], : eval -4.5184 Warning in gam.lo(data[["lo(PC1, span = 0.898389684967697, degree = 1)"]], : lowerlimit -4.4671 Warning in gam.lo(data[["lo(PC1, span = 0.898389684967697, degree = 1)"]], : extrapolation not allowed with blending Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in gam.lo(data[["lo(PC1, span = 0.944675268605351, degree = 1)"]], : eval -4.5184 Warning in gam.lo(data[["lo(PC1, span = 0.944675268605351, degree = 1)"]], : lowerlimit -4.4671 Warning in gam.lo(data[["lo(PC1, span = 0.944675268605351, degree = 1)"]], : extrapolation not allowed with blending Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in gam.lo(data[["lo(PC2, span = 0.572853363351896, degree = 1)"]], : eval -4.5932 Warning in gam.lo(data[["lo(PC2, span = 0.572853363351896, degree = 1)"]], : lowerlimit -4.0007 Warning in gam.lo(data[["lo(PC2, span = 0.572853363351896, degree = 1)"]], : extrapolation not allowed with blending Warning in gam.lo(data[["lo(PC2, span = 0.572853363351896, degree = 1)"]], : eval -4.6415 Warning in gam.lo(data[["lo(PC2, span = 0.572853363351896, degree = 1)"]], : lowerlimit -4.0007 Warning in gam.lo(data[["lo(PC2, span = 0.572853363351896, degree = 1)"]], : extrapolation not allowed with blending Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in gam.lo(data[["lo(PC2, span = 0.908207789994776, degree = 2)"]], : eval -4.5932 Warning in gam.lo(data[["lo(PC2, span = 0.908207789994776, degree = 2)"]], : lowerlimit -4.0007 Warning in gam.lo(data[["lo(PC2, span = 0.908207789994776, degree = 2)"]], : extrapolation not allowed with blending Warning in gam.lo(data[["lo(PC2, span = 0.908207789994776, degree = 2)"]], : eval -4.6415 Warning in gam.lo(data[["lo(PC2, span = 0.908207789994776, degree = 2)"]], : lowerlimit -4.0007 Warning in gam.lo(data[["lo(PC2, span = 0.908207789994776, degree = 2)"]], : extrapolation not allowed with blending Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in gam.lo(data[["lo(PC2, span = 0.201681931037456, degree = 2)"]], : eval -4.5932 Warning in gam.lo(data[["lo(PC2, span = 0.201681931037456, degree = 2)"]], : lowerlimit -4.0007 Warning in gam.lo(data[["lo(PC2, span = 0.201681931037456, degree = 2)"]], : extrapolation not allowed with blending Warning in gam.lo(data[["lo(PC2, span = 0.201681931037456, degree = 2)"]], : eval -4.6415 Warning in gam.lo(data[["lo(PC2, span = 0.201681931037456, degree = 2)"]], : lowerlimit -4.0007 Warning in gam.lo(data[["lo(PC2, span = 0.201681931037456, degree = 2)"]], : extrapolation not allowed with blending Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in gam.lo(data[["lo(PC2, span = 0.898389684967697, degree = 1)"]], : eval -4.5932 Warning in gam.lo(data[["lo(PC2, span = 0.898389684967697, degree = 1)"]], : lowerlimit -4.0007 Warning in gam.lo(data[["lo(PC2, span = 0.898389684967697, degree = 1)"]], : extrapolation not allowed with blending Warning in gam.lo(data[["lo(PC2, span = 0.898389684967697, degree = 1)"]], : eval -4.6415 Warning in gam.lo(data[["lo(PC2, span = 0.898389684967697, degree = 1)"]], : lowerlimit -4.0007 Warning in gam.lo(data[["lo(PC2, span = 0.898389684967697, degree = 1)"]], : extrapolation not allowed with blending Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in gam.lo(data[["lo(PC2, span = 0.944675268605351, degree = 1)"]], : eval -4.5932 Warning in gam.lo(data[["lo(PC2, span = 0.944675268605351, degree = 1)"]], : lowerlimit -4.0007 Warning in gam.lo(data[["lo(PC2, span = 0.944675268605351, degree = 1)"]], : extrapolation not allowed with blending Warning in gam.lo(data[["lo(PC2, span = 0.944675268605351, degree = 1)"]], : eval -4.6415 Warning in gam.lo(data[["lo(PC2, span = 0.944675268605351, degree = 1)"]], : lowerlimit -4.0007 Warning in gam.lo(data[["lo(PC2, span = 0.944675268605351, degree = 1)"]], : extrapolation not allowed with blending Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in gam.lo(data[["lo(PC1, span = 0.572853363351896, degree = 1)"]], : eval 4.6346 Warning in gam.lo(data[["lo(PC1, span = 0.572853363351896, degree = 1)"]], : upperlimit 4.5017 Warning in gam.lo(data[["lo(PC1, span = 0.572853363351896, degree = 1)"]], : extrapolation not allowed with blending Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in gam.lo(data[["lo(PC1, span = 0.908207789994776, degree = 2)"]], : eval 4.6346 Warning in gam.lo(data[["lo(PC1, span = 0.908207789994776, degree = 2)"]], : upperlimit 4.5017 Warning in gam.lo(data[["lo(PC1, span = 0.908207789994776, degree = 2)"]], : extrapolation not allowed with blending Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in gam.lo(data[["lo(PC1, span = 0.201681931037456, degree = 2)"]], : eval 4.6346 Warning in gam.lo(data[["lo(PC1, span = 0.201681931037456, degree = 2)"]], : upperlimit 4.5017 Warning in gam.lo(data[["lo(PC1, span = 0.201681931037456, degree = 2)"]], : extrapolation not allowed with blending Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in gam.lo(data[["lo(PC1, span = 0.898389684967697, degree = 1)"]], : eval 4.6346 Warning in gam.lo(data[["lo(PC1, span = 0.898389684967697, degree = 1)"]], : upperlimit 4.5017 Warning in gam.lo(data[["lo(PC1, span = 0.898389684967697, degree = 1)"]], : extrapolation not allowed with blending Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in gam.lo(data[["lo(PC1, span = 0.944675268605351, degree = 1)"]], : eval 4.6346 Warning in gam.lo(data[["lo(PC1, span = 0.944675268605351, degree = 1)"]], : upperlimit 4.5017 Warning in gam.lo(data[["lo(PC1, span = 0.944675268605351, degree = 1)"]], : extrapolation not allowed with blending Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in gam.lo(data[["lo(PC2, span = 0.572853363351896, degree = 1)"]], : eval -4.6415 Warning in gam.lo(data[["lo(PC2, span = 0.572853363351896, degree = 1)"]], : lowerlimit -4.6372 Warning in gam.lo(data[["lo(PC2, span = 0.572853363351896, degree = 1)"]], : extrapolation not allowed with blending Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in gam.lo(data[["lo(PC2, span = 0.908207789994776, degree = 2)"]], : eval -4.6415 Warning in gam.lo(data[["lo(PC2, span = 0.908207789994776, degree = 2)"]], : lowerlimit -4.6372 Warning in gam.lo(data[["lo(PC2, span = 0.908207789994776, degree = 2)"]], : extrapolation not allowed with blending Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in gam.lo(data[["lo(PC2, span = 0.898389684967697, degree = 1)"]], : eval -4.6415 Warning in gam.lo(data[["lo(PC2, span = 0.898389684967697, degree = 1)"]], : lowerlimit -4.6372 Warning in gam.lo(data[["lo(PC2, span = 0.898389684967697, degree = 1)"]], : extrapolation not allowed with blending Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in gam.lo(data[["lo(PC2, span = 0.944675268605351, degree = 1)"]], : eval -4.6415 Warning in gam.lo(data[["lo(PC2, span = 0.944675268605351, degree = 1)"]], : lowerlimit -4.6372 Warning in gam.lo(data[["lo(PC2, span = 0.944675268605351, degree = 1)"]], : extrapolation not allowed with blending Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading Warning in lo.wam(x, z, wz, fit$smooth, which, fit$smooth.frame, bf.maxit, : lo.wam convergence not obtained in 30 iterations Warning in (function (formula, family = gaussian, data, weights, subset, : Residual degrees of freedom are negative or zero. This occurs when the sum of the parametric and nonparametric degrees of freedom exceeds the number of observations. The model is probably too complex for the amount of data available. Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type == : prediction from a rank-deficient fit may be misleading *** caught segfault *** address 0x4, cause 'memory not mapped' *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation *** recursive gc invocation Traceback: 1: unique(data[!is.na(data)]) 2: FUN(newX[, i], ...) 3: apply(x, 2, function(data) length(unique(data[!is.na(data)]))) 4: nzv(x, freqCut = freqCut, uniqueCut = uniqueCut, saveMetrics = saveMetrics, names = names) 5: nearZeroVar(data) 6: caret:::smootherFormula(x, smoother = "lo", span = param$span, degree = param$degree) 7: method$fit(x = x, y = y, wts = wts, param = tuneValue, lev = obsLevels, last = last, classProbs = classProbs, ...) 8: createModel(x = x[modelIndex, , drop = FALSE], y = y[modelIndex], wts = wts[modelIndex], method = method, tuneValue = new_info$loop[parm, , drop = FALSE], obsLevels = lev, pp = ppp, classProbs = ctrl$classProbs, sampling = ctrl$sampling, ...) 9: doTryCatch(return(expr), name, parentenv, handler) 10: tryCatchOne(expr, names, parentenv, handlers[[1L]]) 11: tryCatchList(expr, classes, parentenv, handlers) 12: tryCatch(expr, error = function(e) { call <- conditionCall(e) if (!is.null(call)) { if (identical(call[[1L]], quote(doTryCatch))) call <- sys.call(-4L) dcall <- deparse(call, nlines = 1L) prefix <- paste("Error in", dcall, ": ") LONG <- 75L sm <- strsplit(conditionMessage(e), "\n")[[1L]] w <- 14L + nchar(dcall, type = "w") + nchar(sm[1L], type = "w") if (is.na(w)) w <- 14L + nchar(dcall, type = "b") + nchar(sm[1L], type = "b") if (w > LONG) prefix <- paste0(prefix, "\n ") } else prefix <- "Error : " msg <- paste0(prefix, conditionMessage(e), "\n") .Internal(seterrmessage(msg[1L])) if (!silent && isTRUE(getOption("show.error.messages"))) { cat(msg, file = outFile) .Internal(printDeferredWarnings()) } invisible(structure(msg, class = "try-error", condition = e))}) 13: try(createModel(x = x[modelIndex, , drop = FALSE], y = y[modelIndex], wts = wts[modelIndex], method = method, tuneValue = new_info$loop[parm, , drop = FALSE], obsLevels = lev, pp = ppp, classProbs = ctrl$classProbs, sampling = ctrl$sampling, ...), silent = TRUE) 14: eval(xpr, envir = envir) 15: eval(xpr, envir = envir) 16: doTryCatch(return(expr), name, parentenv, handler) 17: tryCatchOne(expr, names, parentenv, handlers[[1L]]) 18: tryCatchList(expr, classes, parentenv, handlers) 19: tryCatch(eval(xpr, envir = envir), error = function(e) e) 20: doTryCatch(return(expr), name, parentenv, handler) 21: tryCatchOne(expr, names, parentenv, handlers[[1L]]) 22: tryCatchList(expr, classes, parentenv, handlers) 23: tryCatch({ repeat { args <- nextElem(it) if (obj$verbose) { cat(sprintf("evaluation # %d:\n", i)) print(args) } for (a in names(args)) assign(a, args[[a]], pos = envir, inherits = FALSE) r <- tryCatch(eval(xpr, envir = envir), error = function(e) e) if (obj$verbose) { cat("result of evaluating expression:\n") print(r) } tryCatch(accumulator(list(r), i), error = function(e) { cat("error calling combine function:\n") print(e) NULL }) i <- i + 1 }}, error = function(e) { if (!identical(conditionMessage(e), "StopIteration")) stop(simpleError(conditionMessage(e), expr))}) 24: e$fun(obj, substitute(ex), parent.frame(), e$data) 25: foreach(parm = 1:nrow(new_info$loop), .combine = "c", .verbose = FALSE, .packages = pkgs) %op% { requireNamespaceQuietStop("methods") requireNamespaceQuietStop("caret") if (ctrl$verboseIter) progress(printed[parm, , drop = FALSE], names(resampleIndex), iter, TRUE) if (is.null(new_info$submodels[[parm]]) || nrow(new_info$submodels[[parm]]) > 0) { submod <- new_info$submodels[[parm]] } else submod <- NULL mod <- try(createModel(x = x[modelIndex, , drop = FALSE], y = y[modelIndex], wts = wts[modelIndex], method = method, tuneValue = new_info$loop[parm, , drop = FALSE], obsLevels = lev, pp = ppp, classProbs = ctrl$classProbs, sampling = ctrl$sampling, ...), silent = TRUE) if (class(mod)[1] != "try-error") { predicted <- try(predictionFunction(method = method, modelFit = mod$fit, newdata = x[holdoutIndex, , drop = FALSE], preProc = mod$preProc, param = submod), silent = TRUE) if (inherits(predicted, "try-error")) { wrn <- paste(colnames(printed[parm, , drop = FALSE]), printed[parm, , drop = FALSE], sep = "=", collapse = ", ") wrn <- paste("predictions failed for ", names(resampleIndex)[iter], ": ", wrn, " ", as.character(predicted), sep = "") if (ctrl$verboseIter) cat(wrn, "\n") warning(wrn) rm(wrn) nPred <- length(holdoutIndex) if (!is.null(lev)) { predicted <- rep("", nPred) predicted[seq(along = predicted)] <- NA } else { predicted <- rep(NA, nPred) } if (!is.null(submod)) { tmp <- predicted predicted <- vector(mode = "list", length = nrow(new_info$submodels[[parm]]) + 1) for (i in seq(along = predicted)) predicted[[i]] <- tmp rm(tmp) } } } else { wrn <- paste(colnames(printed[parm, , drop = FALSE]), printed[parm, , drop = FALSE], sep = "=", collapse = ", ") wrn <- paste("model fit failed for ", names(resampleIndex)[iter], ": ", wrn, " ", as.character(mod), sep = "") if (ctrl$verboseIter) cat(wrn, "\n") warning(wrn) rm(wrn) nPred <- length(holdoutIndex) if (!is.null(lev)) { predicted <- rep("", nPred) predicted[seq(along = predicted)] <- NA } else { predicted <- rep(NA, nPred) } if (!is.null(submod)) { tmp <- predicted predicted <- vector(mode = "list", length = nrow(new_info$submodels[[parm]]) + 1) for (i in seq(along = predicted)) predicted[[i]] <- tmp rm(tmp) } } if (testing) print(head(predicted)) if (ctrl$classProbs) { if (class(mod)[1] != "try-error") { probValues <- probFunction(method = method, modelFit = mod$fit, newdata = x[holdoutIndex, , drop = FALSE], preProc = mod$preProc, param = submod) } else { probValues <- as.data.frame(matrix(NA, nrow = nPred, ncol = length(lev)), stringsAsFactors = FALSE) colnames(probValues) <- lev if (!is.null(submod)) { tmp <- probValues probValues <- vector(mode = "list", length = nrow(new_info$submodels[[parm]]) + 1) for (i in seq(along = probValues)) probValues[[i]] <- tmp rm(tmp) } } if (testing) print(head(probValues)) } if (!is.null(submod)) { allParam <- expandParameters(new_info$loop[parm, , drop = FALSE], submod) allParam <- allParam[complete.cases(allParam), , drop = FALSE] predicted <- lapply(predicted, function(x, y, wts, lv) { if (!is.factor(x) & is.character(x)) x <- factor(as.character(x), levels = lv) out <- data.frame(pred = x, obs = y, stringsAsFactors = FALSE) if (!is.null(wts)) out$weights <- wts out }, y = y[holdoutIndex], wts = wts[holdoutIndex], lv = lev) if (testing) print(head(predicted)) if (ctrl$classProbs) { for (k in seq(along = predicted)) predicted[[k]] <- cbind(predicted[[k]], probValues[[k]]) } if (keep_pred) { tmpPred <- predicted for (modIndex in seq(along = tmpPred)) { tmpPred[[modIndex]]$rowIndex <- holdoutIndex tmpPred[[modIndex]] <- merge(tmpPred[[modIndex]], allParam[modIndex, , drop = FALSE], all = TRUE) } tmpPred <- rbind.fill(tmpPred) tmpPred$Resample <- names(resampleIndex)[iter] } else tmpPred <- NULL thisResample <- lapply(predicted, ctrl$summaryFunction, lev = lev, model = method) if (testing) print(head(thisResample)) if (length(lev) > 1) { cells <- lapply(predicted, function(x) flatTable(x$pred, x$obs)) for (ind in seq(along = cells)) thisResample[[ind]] <- c(thisResample[[ind]], cells[[ind]]) } thisResample <- do.call("rbind", thisResample) thisResample <- cbind(allParam, thisResample) } else { if (is.factor(y)) predicted <- factor(as.character(predicted), levels = lev) tmp <- data.frame(pred = predicted, obs = y[holdoutIndex], stringsAsFactors = FALSE) names(tmp)[1] <- "pred" if (!is.null(wts)) tmp$weights <- wts[holdoutIndex] if (ctrl$classProbs) tmp <- cbind(tmp, probValues) if (keep_pred) { tmpPred <- tmp tmpPred$rowIndex <- holdoutIndex tmpPred <- merge(tmpPred, new_info$loop[parm, , drop = FALSE], all = TRUE) tmpPred$Resample <- names(resampleIndex)[iter] } else tmpPred <- NULL thisResample <- ctrl$summaryFunction(tmp, lev = lev, model = method) if (length(lev) > 1) thisResample <- c(thisResample, flatTable(tmp$pred, tmp$obs)) thisResample <- as.data.frame(t(thisResample), stringsAsFactors = FALSE) thisResample <- cbind(thisResample, new_info$loop[parm, , drop = FALSE]) } thisResample$Resample <- names(resampleIndex)[iter] if (ctrl$verboseIter) progress(printed[parm, , drop = FALSE], names(resampleIndex), iter, FALSE) list(resamples = thisResample, pred = tmpPred)} 26: adaptiveWorkflow(x = x, y = y, wts = weights, info = trainInfo, method = models, ppOpts = preProcess, ctrl = trControl, lev = classLevels, metric = metric, maximize = maximize, ...) 27: train.default(y = traits, x = as.data.frame(genotype_u), method = "gamLoess", metric = model_metric, tuneLength = n_hyperparameter_search, trControl = econtrol) 28: caret::train(y = traits, x = as.data.frame(genotype_u), method = "gamLoess", metric = model_metric, tuneLength = n_hyperparameter_search, trControl = econtrol) 29: gamLoessScan(genotype = genotype, traits = (traitq), U = PCs$x[, 1:2], n_hyperparameter_search = 5) An irrecoverable exception occurred. R is aborting now ... * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... OK * checking re-building of vignette outputs ... [15s/15s] OK * checking PDF version of manual ... OK * checking for non-standard things in the check directory ... OK * checking for detritus in the temp directory ... OK * checking for new files in some other directories ... OK * DONE Status: 1 ERROR, 1 NOTE See ‘/data/blackswan/ripley/R/packages/tests-devel/VariantScan.Rcheck/00check.log’ for details. Command exited with non-zero status 1 Time 2:47.35, 150.76 + 11.52