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
--- finished re-building ‘susie_refine.Rmd’

--- re-building ‘susie_rss.Rmd’ using rmarkdown
HINT: For estimate_residual_variance = TRUE, please check that R is the "in-sample" LD matrix; that is, the correlation matrix obtained using the exact same data matrix X that was used for the other summary statistics. Also note, when covariates are included in the univariate regressions that produced the summary statistics, also consider removing these effects from X before computing R.
WARNING: XtX is not symmetric; forcing XtX to be symmetric by replacing XtX with (XtX + t(XtX))/2
HINT: For estimate_residual_variance = TRUE, please check that R is the "in-sample" LD matrix; that is, the correlation matrix obtained using the exact same data matrix X that was used for the other summary statistics. Also note, when covariates are included in the univariate regressions that produced the summary statistics, also consider removing these effects from X before computing R.
WARNING: XtX is not symmetric; forcing XtX to be symmetric by replacing XtX with (XtX + t(XtX))/2
WARNING: XtX is not symmetric; forcing XtX to be symmetric by replacing XtX with (XtX + t(XtX))/2
WARNING: Providing the sample size (n), or even a rough estimate of n, is highly recommended. Without n, the implicit assumption is n is large (Inf) and the effect sizes are small (close to zero).
WARNING: XtX is not symmetric; forcing XtX to be symmetric by replacing XtX with (XtX + t(XtX))/2
--- finished re-building ‘susie_rss.Rmd’

--- re-building ‘susierss_diagnostic.Rmd’ using rmarkdown
OMP: Warning #96: Cannot form a team with 8 threads, using 2 instead.
OMP: Hint Consider unsetting KMP_DEVICE_THREAD_LIMIT (KMP_ALL_THREADS), KMP_TEAMS_THREAD_LIMIT, and OMP_THREAD_LIMIT (if any are set).

warning: solve(): system is singular (rcond: 2.56377e-17); attempting approx solution

warning: solve(): system is singular (rcond: 2.70416e-17); attempting approx solution

warning: solve(): system is singular (rcond: 2.88334e-17); attempting approx solution

warning: solve(): system is singular (rcond: 3.09527e-17); attempting approx solution

warning: solve(): system is singular (rcond: 3.27277e-17); attempting approx solution

warning: solve(): system is singular (rcond: 3.81271e-17); attempting approx solution

warning: solve(): system is singular (rcond: 4.22396e-17); attempting approx solution

warning: solve(): system is singular (rcond: 4.33779e-17); attempting approx solution

warning: solve(): system is singular (rcond: 5.18471e-17); attempting approx solution

warning: solve(): system is singular (rcond: 5.08355e-17); attempting approx solution

warning: solve(): system is singular (rcond: 5.63438e-17); attempting approx solution

warning: solve(): system is singular (rcond: 6.37742e-17); attempting approx solution

warning: solve(): system is singular (rcond: 7.85768e-17); attempting approx solution

warning: solve(): system is singular (rcond: 1.09635e-16); attempting approx solution

warning: solve(): system is singular (rcond: 1.08654e-16); attempting approx solution

warning: solve(): system is singular (rcond: 1.47807e-16); attempting approx solution

warning: solve(): system is singular (rcond: 4.01843e-17); attempting approx solution

warning: solve(): system is singular (rcond: 4.11394e-17); attempting approx solution

warning: solve(): system is singular (rcond: 4.25252e-17); attempting approx solution

warning: solve(): system is singular (rcond: 4.36048e-17); attempting approx solution

warning: solve(): system is singular (rcond: 4.19142e-17); attempting approx solution

warning: solve(): system is singular (rcond: 4.24038e-17); attempting approx solution

warning: solve(): system is singular (rcond: 4.94777e-17); attempting approx solution

warning: solve(): system is singular (rcond: 4.58907e-17); attempting approx solution

warning: solve(): system is singular (rcond: 5.20789e-17); attempting approx solution

warning: solve(): system is singular (rcond: 5.02055e-17); attempting approx solution

warning: solve(): system is singular (rcond: 5.531e-17); attempting approx solution

warning: solve(): system is singular (rcond: 5.60974e-17); attempting approx solution

warning: solve(): system is singular (rcond: 5.36857e-17); attempting approx solution

warning: solve(): system is singular (rcond: 5.90301e-17); attempting approx solution

warning: solve(): system is singular (rcond: 7.20692e-17); attempting approx solution

warning: solve(): system is singular (rcond: 6.42453e-17); attempting approx solution

warning: solve(): system is singular (rcond: 7.68976e-17); attempting approx solution

warning: solve(): system is singular (rcond: 8.008e-17); attempting approx solution

warning: solve(): system is singular (rcond: 8.2439e-17); attempting approx solution

warning: solve(): system is singular (rcond: 8.44558e-17); attempting approx solution

warning: solve(): system is singular (rcond: 8.79767e-17); attempting approx solution

warning: solve(): system is singular (rcond: 1.15118e-16); attempting approx solution

warning: solve(): system is singular (rcond: 1.16821e-16); attempting approx solution

warning: solve(): system is singular (rcond: 1.25576e-16); attempting approx solution

warning: solve(): system is singular (rcond: 1.267e-16); attempting approx solution

warning: solve(): system is singular (rcond: 1.30885e-16); attempting approx solution

warning: solve(): system is singular (rcond: 1.41519e-16); attempting approx solution

warning: solve(): system is singular (rcond: 1.41311e-16); attempting approx solution

warning: solve(): system is singular (rcond: 1.49332e-16); attempting approx solution

warning: solve(): system is singular (rcond: 1.61273e-16); attempting approx solution

warning: solve(): system is singular (rcond: 1.60351e-16); attempting approx solution

warning: solve(): system is singular (rcond: 1.93909e-16); attempting approx solution

warning: solve(): system is singular (rcond: 2.17591e-16); attempting approx solution

warning: solve(): system is singular (rcond: 6.27113e-18); attempting approx solution

warning: solve(): system is singular (rcond: 8.57803e-18); attempting approx solution

warning: solve(): system is singular (rcond: 1.15501e-17); attempting approx solution

warning: solve(): system is singular (rcond: 1.43319e-17); attempting approx solution

warning: solve(): system is singular (rcond: 1.9016e-17); attempting approx solution

warning: solve(): system is singular (rcond: 2.83793e-17); attempting approx solution

warning: solve(): system is singular (rcond: 1.76722e-17); attempting approx solution

warning: solve(): system is singular (rcond: 2.30378e-17); attempting approx solution

warning: solve(): system is singular (rcond: 5.60957e-17); attempting approx solution

warning: solve(): system is singular (rcond: 2.81536e-18); attempting approx solution

warning: solve(): system is singular (rcond: 3.81565e-18); attempting approx solution

warning: solve(): system is singular (rcond: 6.24995e-17); attempting approx solution

warning: solve(): system is singular (rcond: 6.16545e-17); attempting approx solution

warning: solve(): system is singular (rcond: 2.79258e-18); attempting approx solution

warning: solve(): system is singular (rcond: 1.51524e-18); attempting approx solution

warning: solve(): system is singular (rcond: 1.07442e-18); attempting approx solution

warning: solve(): system is singular (rcond: 1.10006e-16); attempting approx solution

warning: solve(): system is singular (rcond: 1.48049e-16); attempting approx solution

warning: solve(): system is singular (rcond: 1.07773e-16); attempting approx solution

warning: solve(): system is singular (rcond: 1.67863e-17); attempting approx solution

warning: solve(): system is singular (rcond: 1.48111e-17); attempting approx solution

warning: solve(): system is singular (rcond: 1.52692e-17); attempting approx solution

warning: solve(): system is singular (rcond: 1.94584e-17); attempting approx solution

warning: solve(): system is singular (rcond: 1.92048e-17); attempting approx solution

warning: solve(): system is singular (rcond: 1.7091e-17); attempting approx solution

warning: solve(): system is singular (rcond: 1.73652e-17); attempting approx solution

warning: solve(): system is singular (rcond: 1.30398e-18); attempting approx solution

warning: solve(): system is singular (rcond: 1.84885e-17); attempting approx solution

warning: solve(): system is singular (rcond: 1.70851e-17); attempting approx solution

warning: solve(): system is singular (rcond: 1.82447e-17); attempting approx solution

warning: solve(): system is singular (rcond: 3.54818e-18); attempting approx solution

warning: solve(): system is singular (rcond: 4.24499e-19); attempting approx solution

warning: solve(): system is singular (rcond: 4.17232e-17); attempting approx solution
--- finished re-building ‘susierss_diagnostic.Rmd’

--- re-building ‘trend_filtering.Rmd’ using rmarkdown
Quitting from lines 86-94 (trend_filtering.Rmd) 
Error: processing vignette 'trend_filtering.Rmd' failed with diagnostics:
there is no package called 'genlasso'
--- failed re-building ‘trend_filtering.Rmd’

--- re-building ‘trendfiltering_derivations.Rnw’ using Sweave
--- finished re-building ‘trendfiltering_derivations.Rnw’

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

Error: Vignette re-building failed.
Execution halted