Running examples in ‘STRMPS-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: findStutter,stringCoverageGenotypeList-method
> ### Title: Find stutters
> ### Aliases: findStutter,stringCoverageGenotypeList-method
> 
> ### ** Examples
> 
> # The object returned by merging a stringCoverageList-Object
> # and a genotypeList-Object.
> data("stringCoverageGenotypeList")
> 
> stutterList <- findStutter(stringCoverageGenotypeList)
Error in unlist(substitutionMatrix, substitutionMatrix) : 
  'recursive' must be a length-1 vector
Calls: findStutter ... mpi.XStringSet.pairwiseAlignment -> XStringSet.pairwiseAlignment -> array -> unlist
Execution halted
Error(s) in re-building vignettes:
  ...
--- re-building ‘STRMPSworkflow.Rmd’ using rmarkdown

Quitting from lines 169-174 [unnamed-chunk-14] (STRMPSworkflow.Rmd)
Error: processing vignette 'STRMPSworkflow.Rmd' failed with diagnostics:
'recursive' must be a length-1 vector
--- failed re-building ‘STRMPSworkflow.Rmd’

SUMMARY: processing the following file failed:
  ‘STRMPSworkflow.Rmd’

Error: Vignette re-building failed.
Execution halted
Running examples in ‘STRMPS-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: findStutter,stringCoverageGenotypeList-method
> ### Title: Find stutters
> ### Aliases: findStutter,stringCoverageGenotypeList-method
> 
> ### ** Examples
> 
> # The object returned by merging a stringCoverageList-Object
> # and a genotypeList-Object.
> data("stringCoverageGenotypeList")
> 
> stutterList <- findStutter(stringCoverageGenotypeList)
Error in unlist(substitutionMatrix, substitutionMatrix) : 
  'recursive' must be a length-1 vector
Calls: findStutter ... mpi.XStringSet.pairwiseAlignment -> XStringSet.pairwiseAlignment -> array -> unlist
Execution halted
Error(s) in re-building vignettes:
  ...
--- re-building ‘STRMPSworkflow.Rmd’ using rmarkdown

Quitting from lines 169-174 [unnamed-chunk-14] (STRMPSworkflow.Rmd)
Error: processing vignette 'STRMPSworkflow.Rmd' failed with diagnostics:
'recursive' must be a length-1 vector
--- failed re-building ‘STRMPSworkflow.Rmd’

SUMMARY: processing the following file failed:
  ‘STRMPSworkflow.Rmd’

Error: Vignette re-building failed.
Execution halted
Running examples in ‘STRMPS-Ex.R’ failed
The error most likely occurred in:

> ### Name: findStutter,stringCoverageGenotypeList-method
> ### Title: Find stutters
> ### Aliases: findStutter,stringCoverageGenotypeList-method
> 
> ### ** Examples
> 
> # The object returned by merging a stringCoverageList-Object
> # and a genotypeList-Object.
> data("stringCoverageGenotypeList")
> 
> stutterList <- findStutter(stringCoverageGenotypeList)
Error in unlist(substitutionMatrix, substitutionMatrix) : 
  'recursive' must be a length-1 vector
Calls: findStutter ... mpi.XStringSet.pairwiseAlignment -> XStringSet.pairwiseAlignment -> array -> unlist
Execution halted
Error(s) in re-building vignettes:
--- re-building ‘STRMPSworkflow.Rmd’ using rmarkdown

Quitting from lines 169-174 [unnamed-chunk-14] (STRMPSworkflow.Rmd)
Error: processing vignette 'STRMPSworkflow.Rmd' failed with diagnostics:
'recursive' must be a length-1 vector
--- failed re-building ‘STRMPSworkflow.Rmd’

SUMMARY: processing the following file failed:
  ‘STRMPSworkflow.Rmd’

Error: Vignette re-building failed.
Execution halted
Running examples in ‘STRMPS-Ex.R’ failed
The error most likely occurred in:

> ### Name: findStutter,stringCoverageGenotypeList-method
> ### Title: Find stutters
> ### Aliases: findStutter,stringCoverageGenotypeList-method
> 
> ### ** Examples
> 
> # The object returned by merging a stringCoverageList-Object
> # and a genotypeList-Object.
> data("stringCoverageGenotypeList")
> 
> stutterList <- findStutter(stringCoverageGenotypeList)
Error in unlist(substitutionMatrix, substitutionMatrix) : 
  'recursive' must be a length-1 vector
Calls: findStutter ... mpi.XStringSet.pairwiseAlignment -> XStringSet.pairwiseAlignment -> array -> unlist
Execution halted
Error(s) in re-building vignettes:
--- re-building ‘STRMPSworkflow.Rmd’ using rmarkdown

Quitting from lines 169-174 [unnamed-chunk-14] (STRMPSworkflow.Rmd)
Error: processing vignette 'STRMPSworkflow.Rmd' failed with diagnostics:
'recursive' must be a length-1 vector
--- failed re-building ‘STRMPSworkflow.Rmd’

SUMMARY: processing the following file failed:
  ‘STRMPSworkflow.Rmd’

Error: Vignette re-building failed.
Execution halted
Running examples in 'STRMPS-Ex.R' failed
The error most likely occurred in:

> ### Name: findStutter,stringCoverageGenotypeList-method
> ### Title: Find stutters
> ### Aliases: findStutter,stringCoverageGenotypeList-method
> 
> ### ** Examples
> 
> # The object returned by merging a stringCoverageList-Object
> # and a genotypeList-Object.
> data("stringCoverageGenotypeList")
> 
> stutterList <- findStutter(stringCoverageGenotypeList)
Error in unlist(substitutionMatrix, substitutionMatrix) : 
  'recursive' must be a length-1 vector
Calls: findStutter ... mpi.XStringSet.pairwiseAlignment -> XStringSet.pairwiseAlignment -> array -> unlist
Execution halted
Error(s) in re-building vignettes:
--- re-building 'STRMPSworkflow.Rmd' using rmarkdown

Quitting from lines 169-174 [unnamed-chunk-14] (STRMPSworkflow.Rmd)
Error: processing vignette 'STRMPSworkflow.Rmd' failed with diagnostics:
'recursive' must be a length-1 vector
--- failed re-building 'STRMPSworkflow.Rmd'

SUMMARY: processing the following file failed:
  'STRMPSworkflow.Rmd'

Error: Vignette re-building failed.
Execution halted
Package required but not available: ‘pwalign’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘STRaitRazoR’
Package suggested but not available for checking: ‘STRaitRazoR’
Package suggested but not available for checking: 'STRaitRazoR'