##############################################################################
##############################################################################
###
### Running command:
###
###   chmod a+r MoPS -R && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data MoPS
###
##############################################################################
##############################################################################


* checking for file 'MoPS/DESCRIPTION' ... OK
* preparing 'MoPS':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'MoPS.Rnw' using Sweave
Warning: Package 'MoPS' is deprecated and will be removed from Bioconductor
  version 3.12
1275 linear regressions will be performed. This will take < 5 minutes.
Creating test functions ....
0 %
10 %
20 %
30 %
40 %
50 %
60 %
70 %
80 %
90 %
100 %
Fitting of test functions to data ....
0 %
100 %
Warning in cor(vec, testfmatrix[[j]], use = "pairwise.complete.obs") :
  the standard deviation is zero
Warning in if (class(mat) == "ExpressionSet") { :
  the condition has length > 1 and only the first element will be used
8610 linear regressions will be performed. This will take < 5 minutes.
Creating test functions ....
0 %
10 %
20 %
30 %
40 %
50 %
60 %
70 %
80 %
90 %
100 %
Fitting of test functions to data ....
0 %
10 %
Warning in cor(vec, testfmatrix[[j]], use = "pairwise.complete.obs") :
  the standard deviation is zero
20 %
Warning in cor(vec, testfmatrix[[j]], use = "pairwise.complete.obs") :
  the standard deviation is zero
30 %
Warning in cor(vec, testfmatrix[[j]], use = "pairwise.complete.obs") :
  the standard deviation is zero
40 %
Warning in cor(vec, testfmatrix[[j]], use = "pairwise.complete.obs") :
  the standard deviation is zero
50 %
Warning in cor(vec, testfmatrix[[j]], use = "pairwise.complete.obs") :
  the standard deviation is zero
60 %
Warning in cor(vec, testfmatrix[[j]], use = "pairwise.complete.obs") :
  the standard deviation is zero
70 %
Warning in cor(vec, testfmatrix[[j]], use = "pairwise.complete.obs") :
  the standard deviation is zero
80 %
Warning in cor(vec, testfmatrix[[j]], use = "pairwise.complete.obs") :
  the standard deviation is zero
90 %
Warning in cor(vec, testfmatrix[[j]], use = "pairwise.complete.obs") :
  the standard deviation is zero
100 %
Warning in cor(vec, testfmatrix[[j]], use = "pairwise.complete.obs") :
  the standard deviation is zero
Warning in if (class(mat) == "ExpressionSet") { :
  the condition has length > 1 and only the first element will be used
108000 linear regressions will be performed. This will take < 5 minutes.
Creating test functions ....
0 %
10 %
20 %
30 %
40 %
50 %
60 %
70 %
80 %
90 %
100 %
Fitting of test functions to data ....
0 %
10 %
20 %
30 %
40 %
50 %
60 %
70 %
80 %
90 %
100 %

Error: processing vignette 'MoPS.Rnw' failed with diagnostics:
 chunk 18 
Error in ccycle[periodic.ids, ] : subscript out of bounds

--- failed re-building 'MoPS.Rnw'

SUMMARY: processing the following file failed:
  'MoPS.Rnw'

Error: Vignette re-building failed.
Execution halted