Error(s) in re-building vignettes:
--- re-building 'PhaseTypeR.Rmd' using rmarkdown
Quitting from lines 112-121 (PhaseTypeR.Rmd) 
Error: processing vignette 'PhaseTypeR.Rmd' failed with diagnostics:
At core/layout/fruchterman_reingold.c:401 : Weights must be positive for Fruchterman-Reingold layout. Invalid value
--- failed re-building 'PhaseTypeR.Rmd'

--- re-building 'a2_pop_gen_iker.Rmd' using rmarkdown
--- finished re-building 'a2_pop_gen_iker.Rmd'

--- re-building 'a3_phasetypeR_SFS.Rmd' using rmarkdown
Loading required package: Matrix

Attaching package: 'expm'

The following object is masked from 'package:Matrix':

    expm

Warning in check_phase_type(subint_mat, init_probs) :
  
 The initial probability vector is automatically generated.

Warning in check_phase_type(subint_mat, init_probs) :
  
 The initial probability vector is automatically generated.

Warning in check_phase_type(subint_mat, init_probs) :
  
 The initial probability vector is automatically generated.

Warning in check_phase_type(subint_mat, init_probs) :
  
 The initial probability vector is automatically generated.

Warning in check_phase_type(subint_mat, init_probs) :
  
 The initial probability vector is automatically generated.

Warning in check_phase_type(subint_mat, init_probs) :
  
 The initial probability vector is automatically generated.

Warning in check_phase_type(subint_mat, init_probs) :
  
 The initial probability vector is automatically generated.

Warning in check_phase_type(subint_mat, init_probs) :
  
 The initial probability vector is automatically generated.

Warning in check_phase_type(subint_mat, init_probs) :
  
 The initial probability vector is automatically generated.

Warning in check_phase_type(subint_mat, init_probs) :
  
 The initial probability vector is automatically generated.

Warning in check_phase_type(subint_mat, init_probs) :
  
 The initial probability vector is automatically generated.

--- finished re-building 'a3_phasetypeR_SFS.Rmd'

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

Error: Vignette re-building failed.
Execution halted