warning message from meffil.ewas.summary()

[lovelymaoqin]

To whom it may concern,

I got this warning message once I ran the ewas.summary. Wondering if this matters or how to fix it?
Any suggestion would be appreciated!

ewas.summary <- meffil.ewas.summary(ewas.ret,

•                                 norm.beta3,
  

•                                 selected.cpg.sites=character(0),
  

•                                 parameters=ewas.parameters)								
  

[meffil.ewas.summary] Fri Jul 21 15:01:38 2023 QQ plots
[meffil.ewas.summary] Fri Jul 21 15:02:01 2023 Manhattan plots
[meffil.ewas.summary] Fri Jul 21 15:02:05 2023 CpG site plots: 5
[FUN] Fri Jul 21 15:02:05 2023 Plotting cg27261219
[FUN] Fri Jul 21 15:02:07 2023 Plotting cg25597805
[FUN] Fri Jul 21 15:02:07 2023 Plotting cg05134847
[FUN] Fri Jul 21 15:02:07 2023 Plotting cg11950361
[FUN] Fri Jul 21 15:02:07 2023 Plotting cg21665905
[meffil.ewas.summary] Fri Jul 21 15:02:07 2023 Sample characteristics
[meffil.ewas.sample.characteristics] Fri Jul 21 15:02:07 2023 summarizing variables
[summarize.variable] Fri Jul 21 15:02:07 2023 variable of interest
[summarize.variable] Fri Jul 21 15:02:07 2023 ED_Age
[summarize.variable] Fri Jul 21 15:02:07 2023 Sex
[summarize.variable] Fri Jul 21 15:02:07 2023 CD8T
[summarize.variable] Fri Jul 21 15:02:07 2023 CD4T
[summarize.variable] Fri Jul 21 15:02:07 2023 NK
[summarize.variable] Fri Jul 21 15:02:07 2023 Bcell
[summarize.variable] Fri Jul 21 15:02:07 2023 Mono
[summarize.variable] Fri Jul 21 15:02:07 2023 Gran
[meffil.ewas.covariate.associations] Fri Jul 21 15:02:07 2023 covariate associations
[FUN] Fri Jul 21 15:02:07 2023 ED_Age
[FUN] Fri Jul 21 15:02:07 2023 Sex
[FUN] Fri Jul 21 15:02:07 2023 CD8T
[FUN] Fri Jul 21 15:02:07 2023 CD4T
[FUN] Fri Jul 21 15:02:07 2023 NK
[FUN] Fri Jul 21 15:02:07 2023 Bcell
[FUN] Fri Jul 21 15:02:07 2023 Mono
[FUN] Fri Jul 21 15:02:07 2023 Gran
Warning messages:
1: The <scale> argument of guides() cannot be FALSE. Use "none" instead as of ggplot2 3.3.4.
ℹ The deprecated feature was likely used in the meffil package.
Please report the issue to the authors.
This warning is displayed once every 8 hours.
Call lifecycle::last_lifecycle_warnings() to see where this warning was generated.
2: In cor.test.default(vars[[1]], vars[[2]], method = "s") :
Cannot compute exact p-value with ties
3: In cor.test.default(vars[[var1]], as.integer(vars[[var2]]), method = "s") :
Cannot compute exact p-value with ties
4: In cor.test.default(vars[[1]], vars[[2]], method = "s") :
Cannot compute exact p-value with ties
5: In cor.test.default(vars[[1]], vars[[2]], method = "s") :
Cannot compute exact p-value with ties
6: In cor.test.default(vars[[1]], vars[[2]], method = "s") :
Cannot compute exact p-value with ties
7: In cor.test.default(vars[[1]], vars[[2]], method = "s") :
Cannot compute exact p-value with ties
8: In cor.test.default(vars[[1]], vars[[2]], method = "s") :
Cannot compute exact p-value with ties
9: In cor.test.default(vars[[1]], vars[[2]], method = "s") :
Cannot compute exact p-value with ties