[BioC] How to hide or suppress note about ward method in clValid package?

[Julian Gehring]

Hi Kaj,

Have a look at 'suppressMessages' and 'suppressWarnings'.

Best wishes
Julian


On 21.07.2014 07:13, Kaj Chokeshaiusaha [guest] wrote:
> Dear R helpers,
>
> I've used clValid package and use these command lines as following.
> one2one.stability.hk <- clValid(obj=t(prep), nClust=c(2:4),
> 	      clMethods = c("hierarchical", "diana",
> 			    "fanny","som","model"),
> 	      validation = "stability",
> 	      maxitems = 13,
> 	      metric = "correlation", method = "ward",
> 	      neighbSize = 10,
> 	      annotation = NULL,
> 	      GOcategory = "all",	      goTermFreq=0.05,dropEvidence=NULL,verbose=FALSE)
>
> During the process, the message
> The "ward" method has been renamed to "ward.D"; note new"ward.D2"
> keep showing unrelently. It is not the warnings and I can't manage to find a way to stop them. Would you please suggest me how to deal with the problem?
>
> Best Regards,
> Kaj
>
>   -- output of sessionInfo():
>
> R version 3.1.0 (2014-04-10)
> Platform: x86_64-pc-linux-gnu (64-bit)
>
> locale:
>   [1] LC_CTYPE=en_GB.UTF-8       LC_NUMERIC=C
>   [3] LC_TIME=en_GB.UTF-8        LC_COLLATE=en_GB.UTF-8
>   [5] LC_MONETARY=en_GB.UTF-8    LC_MESSAGES=en_GB.UTF-8
>   [7] LC_PAPER=en_GB.UTF-8       LC_NAME=C
>   [9] LC_ADDRESS=C               LC_TELEPHONE=C
> [11] LC_MEASUREMENT=en_GB.UTF-8 LC_IDENTIFICATION=C
>
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods   base
>
> other attached packages:
> [1] clValid_0.6-6  cluster_1.15.2
>
> loaded via a namespace (and not attached):
> [1] class_7.3-10
>
>
> --
> Sent via the guest posting facility at bioconductor.org.
>
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