[BioC] flowQ package: qaProcess.marginevents() function doesn't work

[Nishant Gopalakrishnan]

Hi  Ewelina,

You are using the flowQ package (v 1.6.0)  from the  2.5 Bioconductor
release. However the flowCore package you are using seems to be an older
version from the 2.3 release ( v 1.8.3).  Perhaps updating your package
dependencies might fix the issue.

I would recommend updating all your packages to the 2.6 release of
Bioconductor.

Nishant


On 06/02/2010 07:33 AM, Ewelina Bakala wrote:
> hallo everybody,
> I have a problem with qaProcess.marginevents() function from flowQ
> package
> I'm following the example
>
>>  library(flowQ)
>>  data(GvHD)
>>  dest<- tempdir()
>>  qp<- qaProcess.marginevents(GvHD, channels=c("FSC-H", "SSC-H"),
> outdir=dest)
>
> that I got trying
>>  ?qaProcess.marginevents
>
> but the command
>>  qp<- qaProcess.marginevents(GvHD, channels=c("FSC-H", "SSC-H"),
> outdir=dest)
>
> follows to the error message:
> computing margin events...Error: no se pudo encontrar la función
> "boundaryFilter"
> Error en filter(set, boundaryFilter(x, side = side)) :
>   error in evaluating the argument 'filter' in selecting a method for
> function 'filter'
>
> and I have no idea how to deal with this error.I will be very thankful
> if you could help me to solve this problem.
>
> Best wishes,
> Ewelina Bakala
>
>
>
>
>>  sessionInfo()
> R version 2.10.0 (2009-10-26)
> i686-pc-linux-gnu
>
> locale:
>  [1] LC_CTYPE=es_ES.UTF-8       LC_NUMERIC=C
>  [3] LC_TIME=es_ES.UTF-8        LC_COLLATE=es_ES.UTF-8
>  [5] LC_MONETARY=C              LC_MESSAGES=es_ES.UTF-8
>  [7] LC_PAPER=es_ES.UTF-8       LC_NAME=C
>  [9] LC_ADDRESS=C               LC_TELEPHONE=C
> [11] LC_MEASUREMENT=es_ES.UTF-8 LC_IDENTIFICATION=C
>
> attached base packages:
> [1] tools     tcltk     stats     graphics  grDevices utils     datasets
> [8] methods   base
>
> other attached packages:
>  [1] flowQ_1.6.0        latticeExtra_0.6-4 RColorBrewer_1.0-2
> parody_1.4.0
>  [5] bioDist_1.18.0     mvoutlier_1.4      flowViz_1.10.0    
> flowCore_1.8.3
>  [9] Biobase_2.6.0      feature_1.2.4      ks_1.6.8          
> rpanel_1.0-5
> [13] KernSmooth_2.23-3  rrcov_1.0-00       pcaPP_1.7         
> mvtnorm_0.9-8
> [17] robustbase_0.4-5   lattice_0.17-26    outliers_0.13-2
>
> loaded via a namespace (and not attached):
>  [1] annotate_1.24.0     AnnotationDbi_1.8.0 DBI_0.2-4
>  [4] geneplotter_1.24.0  graph_1.24.0        grid_2.10.0
>  [7] MASS_7.3-3          RSQLite_0.7-3       stats4_2.10.0
> [10] xtable_1.5-5
>>
>
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