[BioC] org.Hs.eg.db package loading issues

[Jia, Li (NIH/NCI) [C]]

Thanks Dan! It works.
Li

On 7/26/13 1:43 PM, "Dan Tenenbaum" <dtenenba at fhcrc.org> wrote:

>On Fri, Jul 26, 2013 at 8:41 AM, Guest [guest] <guest at bioconductor.org>
>wrote:
>>
>> Hi,
>>
>> When I run the R code on analysis of HuGene2.0ST array, it generated an
>>error as follows:
>>
>>> source("/Users/jial2/Documents/projects/Project422/limmaAnalysis.R")
>> Loading required package: org.Hs.eg.db
>> Error : .onLoad failed in loadNamespace() for 'org.Hs.eg.db', details:
>>   call: get(name, envir = asNamespace(pkg), inherits = FALSE)
>>   error: object '.setDummyField' not found
>> Error: package ‘org.Hs.eg.db’ could not be loaded
>>
>> Then I run the library individually, it still has the same error
>>message.
>>
>>> library(org.Hs.eg.db)
>> Error : .onLoad failed in loadNamespace() for 'org.Hs.eg.db', details:
>>   call: get(name, envir = asNamespace(pkg), inherits = FALSE)
>>   error: object '.setDummyField' not found
>> Error: package or namespace load failed for ‘org.Hs.eg.db’
>>
>> Any suggestions would be highly appreciated.
>>
>
>
>This problem can be solved by updating to R 3.0.1.
>Dan
>
>
>> Thanks,
>>
>>
>>  -- output of sessionInfo():
>>
>>> sessionInfo()
>> R version 3.0.0 (2013-04-03)
>> Platform: x86_64-apple-darwin10.8.0 (64-bit)
>>
>> locale:
>> [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
>>
>> attached base packages:
>> [1] parallel  stats     graphics  grDevices utils     datasets  methods
>>  base
>>
>> other attached packages:
>>  [1] AnnotationDbi_1.22.6       limma_3.16.6
>>pd.hugene.2.0.st_3.8.0
>>  [4] RSQLite_0.11.4             DBI_0.2-7                  oligo_1.24.1
>>  [7] oligoClasses_1.22.0        affyPLM_1.36.0
>>preprocessCore_1.22.0
>> [10] arrayQualityMetrics_3.16.0 affyQCReport_1.38.0
>>lattice_0.20-15
>> [13] simpleaffy_2.36.1          gcrma_2.32.0
>>genefilter_1.42.0
>> [16] affy_1.38.1                Biobase_2.20.1
>>BiocGenerics_0.6.0
>> [19] BiocInstaller_1.10.2
>>
>> loaded via a namespace (and not attached):
>>  [1] affxparser_1.32.3    affyio_1.28.0        annotate_1.38.0
>>beadarray_2.10.0
>>  [5] BeadDataPackR_1.12.0 Biostrings_2.28.0    bit_1.1-10
>>Cairo_1.5-2
>>  [9] cluster_1.14.4       codetools_0.2-8      colorspace_1.2-2
>>ff_2.2-11
>> [13] foreach_1.4.1        GenomicRanges_1.12.4 grid_3.0.0
>>Hmisc_3.12-2
>> [17] hwriter_1.3          IRanges_1.18.2       iterators_1.0.6
>>KernSmooth_2.23-10
>> [21] latticeExtra_0.6-24  plyr_1.8             RColorBrewer_1.0-5
>>reshape2_1.2.2
>> [25] rpart_4.1-1          setRNG_2011.11-2     splines_3.0.0
>>stats4_3.0.0
>> [29] stringr_0.6.2        survival_2.37-4      SVGAnnotation_0.93-1
>>tools_3.0.0
>> [33] vsn_3.28.0           XML_3.95-0.2         xtable_1.7-1
>>zlibbioc_1.6.0
>>
>> --
>> Sent via the guest posting facility at bioconductor.org.
>>
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