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

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: kmeRs_heatmap
> ### Title: K-mer similarity score heatmap
> ### Aliases: kmeRs_heatmap
> 
> ### ** Examples
> 
> # Use RColorBrewer to generate a figure similar to publication
> library(RColorBrewer)
> h.palette <- rev(brewer.pal(9, "YlGnBu"))
> q0 <- c("GATTACA", "ACAGATT", "GAATTAC", "GAAATCT", "CTATAGA", "GTACATA", "AACGATT")
> example <- kmeRs_similarity_matrix(q0, submat = "BLOSUM62")
Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'score': 'recursive' must be a length-1 vector
Calls: kmeRs_similarity_matrix ... mpi.XStringSet.pairwiseAlignment -> XStringSet.pairwiseAlignment -> array -> unlist
Execution halted
Error(s) in re-building vignettes:
  ...
--- re-building ‘Introduction_to_kmeRs_package.Rmd’ using rmarkdown

Quitting from lines 40-44 [unnamed-chunk-2] (Introduction_to_kmeRs_package.Rmd)
Error: processing vignette 'Introduction_to_kmeRs_package.Rmd' failed with diagnostics:
error in evaluating the argument 'x' in selecting a method for function 'score': 'recursive' must be a length-1 vector
--- failed re-building ‘Introduction_to_kmeRs_package.Rmd’

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

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

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: kmeRs_heatmap
> ### Title: K-mer similarity score heatmap
> ### Aliases: kmeRs_heatmap
> 
> ### ** Examples
> 
> # Use RColorBrewer to generate a figure similar to publication
> library(RColorBrewer)
> h.palette <- rev(brewer.pal(9, "YlGnBu"))
> q0 <- c("GATTACA", "ACAGATT", "GAATTAC", "GAAATCT", "CTATAGA", "GTACATA", "AACGATT")
> example <- kmeRs_similarity_matrix(q0, submat = "BLOSUM62")
Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'score': 'recursive' must be a length-1 vector
Calls: kmeRs_similarity_matrix ... mpi.XStringSet.pairwiseAlignment -> XStringSet.pairwiseAlignment -> array -> unlist
Execution halted
Error(s) in re-building vignettes:
  ...
--- re-building ‘Introduction_to_kmeRs_package.Rmd’ using rmarkdown

Quitting from lines 40-44 [unnamed-chunk-2] (Introduction_to_kmeRs_package.Rmd)
Error: processing vignette 'Introduction_to_kmeRs_package.Rmd' failed with diagnostics:
error in evaluating the argument 'x' in selecting a method for function 'score': 'recursive' must be a length-1 vector
--- failed re-building ‘Introduction_to_kmeRs_package.Rmd’

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

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

> ### Name: kmeRs_heatmap
> ### Title: K-mer similarity score heatmap
> ### Aliases: kmeRs_heatmap
> 
> ### ** Examples
> 
> # Use RColorBrewer to generate a figure similar to publication
> library(RColorBrewer)
> h.palette <- rev(brewer.pal(9, "YlGnBu"))
> q0 <- c("GATTACA", "ACAGATT", "GAATTAC", "GAAATCT", "CTATAGA", "GTACATA", "AACGATT")
> example <- kmeRs_similarity_matrix(q0, submat = "BLOSUM62")
Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'score': 'recursive' must be a length-1 vector
Calls: kmeRs_similarity_matrix ... mpi.XStringSet.pairwiseAlignment -> XStringSet.pairwiseAlignment -> array -> unlist
Execution halted
Error(s) in re-building vignettes:
--- re-building ‘Introduction_to_kmeRs_package.Rmd’ using rmarkdown

Quitting from lines 40-44 [unnamed-chunk-2] (Introduction_to_kmeRs_package.Rmd)
Error: processing vignette 'Introduction_to_kmeRs_package.Rmd' failed with diagnostics:
error in evaluating the argument 'x' in selecting a method for function 'score': 'recursive' must be a length-1 vector
--- failed re-building ‘Introduction_to_kmeRs_package.Rmd’

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

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

> ### Name: kmeRs_heatmap
> ### Title: K-mer similarity score heatmap
> ### Aliases: kmeRs_heatmap
> 
> ### ** Examples
> 
> # Use RColorBrewer to generate a figure similar to publication
> library(RColorBrewer)
> h.palette <- rev(brewer.pal(9, "YlGnBu"))
> q0 <- c("GATTACA", "ACAGATT", "GAATTAC", "GAAATCT", "CTATAGA", "GTACATA", "AACGATT")
> example <- kmeRs_similarity_matrix(q0, submat = "BLOSUM62")
Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'score': 'recursive' must be a length-1 vector
Calls: kmeRs_similarity_matrix ... mpi.XStringSet.pairwiseAlignment -> XStringSet.pairwiseAlignment -> array -> unlist
Execution halted
Error(s) in re-building vignettes:
--- re-building ‘Introduction_to_kmeRs_package.Rmd’ using rmarkdown

Quitting from lines 40-44 [unnamed-chunk-2] (Introduction_to_kmeRs_package.Rmd)
Error: processing vignette 'Introduction_to_kmeRs_package.Rmd' failed with diagnostics:
error in evaluating the argument 'x' in selecting a method for function 'score': 'recursive' must be a length-1 vector
--- failed re-building ‘Introduction_to_kmeRs_package.Rmd’

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

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

> ### Name: kmeRs_heatmap
> ### Title: K-mer similarity score heatmap
> ### Aliases: kmeRs_heatmap
> 
> ### ** Examples
> 
> # Use RColorBrewer to generate a figure similar to publication
> library(RColorBrewer)
> h.palette <- rev(brewer.pal(9, "YlGnBu"))
> q0 <- c("GATTACA", "ACAGATT", "GAATTAC", "GAAATCT", "CTATAGA", "GTACATA", "AACGATT")
> example <- kmeRs_similarity_matrix(q0, submat = "BLOSUM62")
Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'score': 'recursive' must be a length-1 vector
Calls: kmeRs_similarity_matrix ... mpi.XStringSet.pairwiseAlignment -> XStringSet.pairwiseAlignment -> array -> unlist
Execution halted
Error(s) in re-building vignettes:
--- re-building 'Introduction_to_kmeRs_package.Rmd' using rmarkdown

Quitting from lines 40-44 [unnamed-chunk-2] (Introduction_to_kmeRs_package.Rmd)
Error: processing vignette 'Introduction_to_kmeRs_package.Rmd' failed with diagnostics:
error in evaluating the argument 'x' in selecting a method for function 'score': 'recursive' must be a length-1 vector
--- failed re-building 'Introduction_to_kmeRs_package.Rmd'

SUMMARY: processing the following file failed:
  'Introduction_to_kmeRs_package.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 required but not available: ‘pwalign’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘pwalign’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: 'pwalign'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.