On Tue, Mar 20, 2012 at 10:32 PM, Rosalind Cutts <r.j.cutts@qmul.ac.uk>wrote:

> Hi
>
> I’m trying to use the arrayQualityMetrics package and get the following
> error:
>
> Error in UseMethod("xmlAttrs", node) :
>  no applicable method for 'xmlAttrs' applied to an object of class "NULL"
> KernSmooth 2.23 loaded
>
> I am also getting the same error.


> Having seen some posts similar to this from about a year or so ago I have
> tried updating R and bioconductor but still get the same error.
>
> Basically the first set of graphs are created and then the error occurs.
>
> See additonal information below.
>
> Would you have some suggestions of what to try next.
>
> Thanks
> Ros Cutts
> Barts Cancer Institute
>
> traceback()
> 2: stop(txt, domain = NA)
> 1: library("arrayQualityMetrics")
>
>
> > sessionInfo()
> R version 2.14.2 (2012-02-29)
> Platform: x86_64-unknown-linux-gnu (64-bit)
>
> locale:
>  [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C
>  [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8
>  [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8
>  [7] LC_PAPER=C                 LC_NAME=C
>  [9] LC_ADDRESS=C               LC_TELEPHONE=C
> [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
>
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods   base
>
> other attached packages:
> [1] hgu133plus2cdf_2.9.1       AnnotationDbi_1.16.19
> [3] limma_3.10.3               affy_1.32.1
> [5] Biobase_2.14.0             arrayQualityMetrics_3.10.0
> [7] BiocInstaller_1.2.1
>
> loaded via a namespace (and not attached):
>  [1] affyio_1.22.0         affyPLM_1.30.0        annotate_1.32.3
>  [4] beadarray_2.4.2       Biostrings_2.22.0     Cairo_1.5-1
>  [7] cluster_1.14.2        colorspace_1.1-1      DBI_0.2-5
> [10] genefilter_1.36.0     grid_2.14.2           Hmisc_3.9-2
> [13] hwriter_1.3           IRanges_1.12.6        KernSmooth_2.23-7
> [16] lattice_0.20-6        latticeExtra_0.6-19   plyr_1.7.1
> [19] preprocessCore_1.16.0 RColorBrewer_1.0-5    reshape2_1.2.1
> [22] RSQLite_0.11.1        setRNG_2009.11-1      splines_2.14.2
> [25] stringr_0.6           survival_2.36-12      SVGAnnotation_0.9-0
> [28] tools_2.14.2          vsn_3.22.0            XML_3.9-4
> [31] xtable_1.7-0          zlibbioc_1.0.1
>
>
>
>
>
>
>
>
>
>
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