Package: CalibrationCurves
Check: re-building of vignette outputs
New result: ERROR
  Error(s) in re-building vignettes:
    ...
  --- re-building ‘CalibrationCurves.Rmd’ using rmarkdown
  ** Processing: /home/hornik/tmp/CRAN_recheck/CalibrationCurves.Rcheck/vign_test/CalibrationCurves/vignettes/CalibrationCurves_files/figure-html/unnamed-chunk-6-1.png
  1344x960 pixels, 3x8 bits/pixel, RGB
  Input IDAT size = 90633 bytes
  Input file size = 90843 bytes
  
  Trying:
    zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 72130
    zc = 9  zm = 8  zs = 1  f = 0
    zc = 1  zm = 8  zs = 2  f = 0
    zc = 9  zm = 8  zs = 3  f = 0
    zc = 9  zm = 8  zs = 0  f = 5
    zc = 9  zm = 8  zs = 1  f = 5
    zc = 1  zm = 8  zs = 2  f = 5
    zc = 9  zm = 8  zs = 3  f = 5
                                 
  Selecting parameters:
    zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 72130
  
  Output IDAT size = 72130 bytes (18503 bytes decrease)
  Output file size = 72208 bytes (18635 bytes = 20.51% decrease)
  
  ** Processing: /home/hornik/tmp/CRAN_recheck/CalibrationCurves.Rcheck/vign_test/CalibrationCurves/vignettes/CalibrationCurves_files/figure-html/unnamed-chunk-9-1.png
  1344x960 pixels, 8 bits/pixel, 256 colors in palette
  Reducing image to 8 bits/pixel, grayscale
  Input IDAT size = 24256 bytes
  Input file size = 25138 bytes
  
  Trying:
    zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 20465
    zc = 9  zm = 8  zs = 1  f = 0
    zc = 1  zm = 8  zs = 2  f = 0
    zc = 9  zm = 8  zs = 3  f = 0
    zc = 9  zm = 8  zs = 0  f = 5
    zc = 9  zm = 8  zs = 1  f = 5
    zc = 1  zm = 8  zs = 2  f = 5
    zc = 9  zm = 8  zs = 3  f = 5
                                 
  Selecting parameters:
    zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 20465
  
  Output IDAT size = 20465 bytes (3791 bytes decrease)
  Output file size = 20543 bytes (4595 bytes = 18.28% decrease)
  
  
  Quitting from lines 206-207 [unnamed-chunk-10] (CalibrationCurves.Rmd)
  Error: processing vignette 'CalibrationCurves.Rmd' failed with diagnostics:
  Nk = 3 led to estimation problems.
  --- failed re-building ‘CalibrationCurves.Rmd’
  
  SUMMARY: processing the following file failed:
    ‘CalibrationCurves.Rmd’
  
  Error: Vignette re-building failed.
  Execution halted

Package: cpmBigData
Check: examples
New result: ERROR
  Running examples in ‘cpmBigData-Ex.R’ failed
  The error most likely occurred in:
  
  > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
  > ### Name: ormBD
  > ### Title: Cumulative Probability Model for Big Data
  > ### Aliases: ormBD
  > 
  > ### ** Examples
  > 
  > ## generate a small example data and run one of the three methods 
  > set.seed(1)
  > n <- 200
  > x1 = rnorm(n); x2 = rnorm(n)
  > tmpdata = data.frame(x1 = x1, x2 = x2, y = rnorm(n) + x1 + 2*x2)
  > modbinning <- ormBD(y ~ x1 + x2, data = tmpdata, family = loglog,
  +                      approach = "binning", target_num = 100)
  Error: object 'loglog' not found
  Execution halted

Package: ormBigData
Check: examples
New result: ERROR
  Running examples in ‘ormBigData-Ex.R’ failed
  The error most likely occurred in:
  
  > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
  > ### Name: ormBD
  > ### Title: Cumulative Probability Model for Big Data
  > ### Aliases: ormBD
  > 
  > ### ** Examples
  > 
  > ## generate a small example data and run one of the three methods 
  > set.seed(1)
  > n <- 200
  > x1 = rnorm(n); x2 = rnorm(n)
  > tmpdata = data.frame(x1 = x1, x2 = x2, y = rnorm(n) + x1 + 2*x2)
  > modbinning <- ormBD(y ~ x1 + x2, data = tmpdata, family = loglog,
  +                      approach = "binning", target_num = 100)
  Error: object 'loglog' not found
  Execution halted

Package: PResiduals
Check: examples
New result: ERROR
  Running examples in ‘PResiduals-Ex.R’ failed
  The error most likely occurred in:
  
  > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
  > ### Name: conditional_Spearman
  > ### Title: Conditional Partial Spearman's Rank Correlation
  > ### Aliases: conditional_Spearman
  > 
  > ### ** Examples
  > 
  > data(PResidData)
  > library(rms)
  Loading required package: Hmisc
  
  Attaching package: ‘Hmisc’
  
  The following objects are masked from ‘package:base’:
  
      format.pval, units
  
  > #### fitting cumulative link models for both Y and W
  > result <- conditional_Spearman(c|y~ x + w, conditional.by="w",
  +                                        conditional.method="lm", conditional.formula="~rcs(w)",
  +                                        fit.x="poisson",fit.y="orm",
  +                                        data=PResidData, fisher=TRUE)
  Error in -as.matrix(mod$info.matrix) : invalid argument to unary operator
  Calls: conditional_Spearman -> orm.scores
  Execution halted