'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
  ...
--- re-building 'Extending-cooccurNet.Rmd' using rmarkdown
Quitting from lines 326-327 (Extending-cooccurNet.Rmd) 
Error: processing vignette 'Extending-cooccurNet.Rmd' failed with diagnostics:
'cBind' is defunct.
 Since R version 3.2.0, base's cbind() should work fine with S4 objects
--- failed re-building 'Extending-cooccurNet.Rmd'

SUMMARY: processing the following file failed:
  'Extending-cooccurNet.Rmd'

Error: Vignette re-building failed.
Execution halted
Found the following files/directories:
  'cooccurNetwork' 'memory.limits'
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
  ...
--- re-building ‘Extending-cooccurNet.Rmd’ using rmarkdown
Quitting from lines 326-327 (Extending-cooccurNet.Rmd) 
Error: processing vignette 'Extending-cooccurNet.Rmd' failed with diagnostics:
'cBind' is defunct.
 Since R version 3.2.0, base's cbind() should work fine with S4 objects
--- failed re-building ‘Extending-cooccurNet.Rmd’

SUMMARY: processing the following file failed:
  ‘Extending-cooccurNet.Rmd’

Error: Vignette re-building failed.
Execution halted
Found the following files/directories:
  ‘cooccurNetwork’ ‘memory.limits’
Namespace in Imports field not imported from: ‘knitr’
  All declared Imports should be used.
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
--- re-building ‘Extending-cooccurNet.Rmd’ using rmarkdown
Quitting from lines 326-327 (Extending-cooccurNet.Rmd) 
Error: processing vignette 'Extending-cooccurNet.Rmd' failed with diagnostics:
'cBind' is defunct.
 Since R version 3.2.0, base's cbind() should work fine with S4 objects
--- failed re-building ‘Extending-cooccurNet.Rmd’

SUMMARY: processing the following file failed:
  ‘Extending-cooccurNet.Rmd’

Error: Vignette re-building failed.
Execution halted
Found the following files/directories:
  ‘cooccurNetwork’ ‘memory.limits’
Namespace in Imports field not imported from: ‘knitr’
  All declared Imports should be used.
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
--- re-building ‘Extending-cooccurNet.Rmd’ using rmarkdown
Quitting from lines 326-327 (Extending-cooccurNet.Rmd) 
Error: processing vignette 'Extending-cooccurNet.Rmd' failed with diagnostics:
'cBind' is defunct.
 Since R version 3.2.0, base's cbind() should work fine with S4 objects
--- failed re-building ‘Extending-cooccurNet.Rmd’

SUMMARY: processing the following file failed:
  ‘Extending-cooccurNet.Rmd’

Error: Vignette re-building failed.
Execution halted
Found the following files/directories:
  ‘cooccurNetwork’ ‘memory.limits’
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
--- re-building 'Extending-cooccurNet.Rmd' using rmarkdown
Quitting from lines 326-327 (Extending-cooccurNet.Rmd) 
Error: processing vignette 'Extending-cooccurNet.Rmd' failed with diagnostics:
'cBind' is defunct.
 Since R version 3.2.0, base's cbind() should work fine with S4 objects
--- failed re-building 'Extending-cooccurNet.Rmd'

SUMMARY: processing the following file failed:
  'Extending-cooccurNet.Rmd'

Error: Vignette re-building failed.
Execution halted
Namespace in Imports field not imported from: 'knitr'
  All declared Imports should be used.
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
  ...
--- re-building 'Extending-cooccurNet.Rmd' using rmarkdown
Quitting from lines 326-327 (Extending-cooccurNet.Rmd) 
Error: processing vignette 'Extending-cooccurNet.Rmd' failed with diagnostics:
'cBind' is defunct.
 Since R version 3.2.0, base's cbind() should work fine with S4 objects
--- failed re-building 'Extending-cooccurNet.Rmd'

SUMMARY: processing the following file failed:
  'Extending-cooccurNet.Rmd'

Error: Vignette re-building failed.
Execution halted
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
  ...
--- re-building ‘Extending-cooccurNet.Rmd’ using rmarkdown
Quitting from lines 326-327 (Extending-cooccurNet.Rmd) 
Error: processing vignette 'Extending-cooccurNet.Rmd' failed with diagnostics:
'cBind' is defunct.
 Since R version 3.2.0, base's cbind() should work fine with S4 objects
--- failed re-building ‘Extending-cooccurNet.Rmd’

SUMMARY: processing the following file failed:
  ‘Extending-cooccurNet.Rmd’

Error: Vignette re-building failed.
Execution halted
Found the following files/directories:
  ‘cooccurNetwork’ ‘memory.limits’
Namespace in Imports field not imported from: ‘knitr’
  All declared Imports should be used.
'LazyData' is specified without a 'data' directory
Running examples in ‘cooccurNet-Ex.R’ failed
The error most likely occurred in:

> ### Name: coocnet
> ### Title: coocnet
> ### Aliases: coocnet
> 
> ### ** Examples
> 
> cooccurNetwork  = coocnet(dataFile=getexample(dataType="protein"), dataType="protein")
reading file......
completed. (10,329)
preprocess file......Error in if (pred >= memsize * alpha || ncol > 150 || (nrow > 30000 &  : 
  missing value where TRUE/FALSE needed
Calls: coocnet ... cooccur.dataprepreprocess.preprocess -> inmemoryflag
Execution halted
Error(s) in re-building vignettes:
  ...
--- re-building ‘Extending-cooccurNet.Rmd’ using rmarkdown
Quitting from lines 176-178 (Extending-cooccurNet.Rmd) 
Error: processing vignette 'Extending-cooccurNet.Rmd' failed with diagnostics:
missing value where TRUE/FALSE needed
--- failed re-building ‘Extending-cooccurNet.Rmd’

SUMMARY: processing the following file failed:
  ‘Extending-cooccurNet.Rmd’

Error: Vignette re-building failed.
Execution halted
Found the following files/directories:
  ‘memory.limits’
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
  ...
--- re-building ‘Extending-cooccurNet.Rmd’ using rmarkdown
Quitting from lines 326-327 (Extending-cooccurNet.Rmd) 
Error: processing vignette 'Extending-cooccurNet.Rmd' failed with diagnostics:
'cBind' is defunct.
 Since R version 3.2.0, base's cbind() should work fine with S4 objects
--- failed re-building ‘Extending-cooccurNet.Rmd’

SUMMARY: processing the following file failed:
  ‘Extending-cooccurNet.Rmd’

Error: Vignette re-building failed.
Execution halted
Found the following files/directories:
  ‘cooccurNetwork’ ‘memory.limits’
Namespace in Imports field not imported from: ‘knitr’
  All declared Imports should be used.
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
  ...
--- re-building ‘Extending-cooccurNet.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
  Pandoc (>= 1.12.3) not available. Falling back to R Markdown v1.
Quitting from lines 326-327 (Extending-cooccurNet.Rmd) 
Error: processing vignette 'Extending-cooccurNet.Rmd' failed with diagnostics:
'cBind' is defunct.
 Since R version 3.2.0, base's cbind() should work fine with S4 objects
--- failed re-building ‘Extending-cooccurNet.Rmd’

SUMMARY: processing the following file failed:
  ‘Extending-cooccurNet.Rmd’

Error: Vignette re-building failed.
Execution halted
Namespace in Imports field not imported from: ‘knitr’
  All declared Imports should be used.
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
  ...
--- re-building ‘Extending-cooccurNet.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
  Pandoc (>= 1.12.3) not available. Falling back to R Markdown v1.
Quitting from lines 326-327 (Extending-cooccurNet.Rmd) 
Error: processing vignette 'Extending-cooccurNet.Rmd' failed with diagnostics:
'cBind' is defunct.
 Since R version 3.2.0, base's cbind() should work fine with S4 objects
--- failed re-building ‘Extending-cooccurNet.Rmd’

SUMMARY: processing the following file failed:
  ‘Extending-cooccurNet.Rmd’

Error: Vignette re-building failed.
Execution halted
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
--- re-building 'Extending-cooccurNet.Rmd' using rmarkdown
Quitting from lines 326-327 (Extending-cooccurNet.Rmd) 
Error: processing vignette 'Extending-cooccurNet.Rmd' failed with diagnostics:
'cBind' is defunct.
 Since R version 3.2.0, base's cbind() should work fine with S4 objects
--- failed re-building 'Extending-cooccurNet.Rmd'

SUMMARY: processing the following file failed:
  'Extending-cooccurNet.Rmd'

Error: Vignette re-building failed.
Execution halted
Namespace in Imports field not imported from: ‘knitr’
  All declared Imports should be used.
Error(s) in re-building vignettes:
--- re-building 'Extending-cooccurNet.Rmd' using rmarkdown
Quitting from lines 326-327 (Extending-cooccurNet.Rmd) 
Error: processing vignette 'Extending-cooccurNet.Rmd' failed with diagnostics:
'cBind' is defunct.
 Since R version 3.2.0, base's cbind() should work fine with S4 objects
--- failed re-building 'Extending-cooccurNet.Rmd'

SUMMARY: processing the following file failed:
  'Extending-cooccurNet.Rmd'

Error: Vignette re-building failed.
Execution halted