Error(s) in re-building vignettes:
--- re-building 'finemapping.Rmd' using rmarkdown
--- finished re-building 'finemapping.Rmd'

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

--- re-building 'l0_initialization.Rmd' using rmarkdown
--- finished re-building 'l0_initialization.Rmd'

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

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

--- re-building 'susie_refine.Rmd' using rmarkdown
Quitting from lines 24-33 (susie_refine.Rmd) 
Error: processing vignette 'susie_refine.Rmd' failed with diagnostics:
Failed to connect to raw.githubusercontent.com port 443: Timed out
--- failed re-building 'susie_refine.Rmd'

--- re-building 'susierss_diagnostic.Rmd' using rmarkdown

warning: solve(): system is singular (rcond: 1.5221e-17); attempting approx solution

warning: solve(): system is singular (rcond: 1.60819e-17); attempting approx solution

warning: solve(): system is singular (rcond: 1.62066e-17); attempting approx solution

warning: solve(): system is singular (rcond: 1.97436e-17); attempting approx solution

warning: solve(): system is singular (rcond: 2.07764e-17); attempting approx solution

warning: solve(): system is singular (rcond: 2.13197e-17); attempting approx solution

warning: solve(): system is singular (rcond: 2.19304e-17); attempting approx solution

warning: solve(): system is singular (rcond: 2.2974e-17); attempting approx solution

warning: solve(): system is singular (rcond: 2.15163e-17); attempting approx solution

warning: solve(): system is singular (rcond: 2.79746e-17); attempting approx solution

warning: solve(): system is singular (rcond: 2.2837e-17); attempting approx solution

warning: solve(): system is singular (rcond: 3.11074e-17); attempting approx solution

warning: solve(): system is singular (rcond: 2.69643e-17); attempting approx solution

warning: solve(): system is singular (rcond: 2.87431e-17); attempting approx solution

warning: solve(): system is singular (rcond: 3.97647e-17); attempting approx solution

warning: solve(): system is singular (rcond: 3.44856e-17); attempting approx solution

warning: solve(): system is singular (rcond: 3.6997e-17); attempting approx solution

warning: solve(): system is singular (rcond: 4.61975e-17); attempting approx solution

warning: solve(): system is singular (rcond: 5.49992e-17); attempting approx solution

warning: solve(): system is singular (rcond: 5.83561e-17); attempting approx solution

warning: solve(): system is singular (rcond: 7.22593e-17); attempting approx solution

warning: solve(): system is singular (rcond: 9.64121e-17); attempting approx solution

warning: solve(): system is singular (rcond: 1.02052e-16); attempting approx solution

warning: solve(): system is singular (rcond: 1.10423e-16); attempting approx solution

warning: solve(): system is singular (rcond: 9.64853e-17); attempting approx solution

warning: solve(): system is singular (rcond: 1.05107e-16); attempting approx solution

warning: solve(): system is singular (rcond: 7.82829e-18); attempting approx solution

warning: solve(): system is singular (rcond: 8.62507e-18); attempting approx solution

warning: solve(): system is singular (rcond: 9.13862e-18); attempting approx solution

warning: solve(): system is singular (rcond: 9.60154e-18); attempting approx solution

warning: solve(): system is singular (rcond: 1.02258e-17); attempting approx solution

warning: solve(): system is singular (rcond: 1.93482e-17); attempting approx solution

warning: solve(): system is singular (rcond: 2.23276e-17); attempting approx solution

warning: solve(): system is singular (rcond: 2.38635e-17); attempting approx solution

warning: solve(): system is singular (rcond: 2.90767e-17); attempting approx solution

warning: solve(): system is singular (rcond: 2.43726e-17); attempting approx solution

warning: solve(): system is singular (rcond: 2.39294e-17); attempting approx solution

warning: solve(): system is singular (rcond: 2.84802e-17); attempting approx solution

warning: solve(): system is singular (rcond: 3.51387e-17); attempting approx solution

warning: solve(): system is singular (rcond: 5.94552e-17); attempting approx solution

warning: solve(): system is singular (rcond: 5.95816e-17); attempting approx solution

warning: solve(): system is singular (rcond: 6.07095e-17); attempting approx solution

warning: solve(): system is singular (rcond: 5.86801e-17); attempting approx solution

warning: solve(): system is singular (rcond: 3.29666e-18); attempting approx solution

warning: solve(): system is singular (rcond: 3.31693e-18); attempting approx solution

warning: solve(): system is singular (rcond: 3.62404e-18); attempting approx solution

warning: solve(): system is singular (rcond: 6.40698e-18); attempting approx solution

warning: solve(): system is singular (rcond: 5.23896e-18); attempting approx solution

warning: solve(): system is singular (rcond: 1.64142e-18); attempting approx solution
Quitting from lines 70-83 (susierss_diagnostic.Rmd) 
Error: processing vignette 'susierss_diagnostic.Rmd' failed with diagnostics:
Failed to connect to raw.githubusercontent.com port 443: Timed out
--- failed re-building 'susierss_diagnostic.Rmd'

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

--- re-building 'trendfiltering_derivations.Rnw' using Sweave
--- finished re-building 'trendfiltering_derivations.Rnw'

SUMMARY: processing the following files failed:
  'susie_refine.Rmd' 'susierss_diagnostic.Rmd'

Error: Vignette re-building failed.
Execution halted