Question: GEOQuery - Encoding UTF-8
gravatar for Adrian Johnson
18 months ago by
Adrian Johnson330 wrote:


I am trying to download GSE data tables and encountered the following error. 

I cannot find a proper solution. Could someone help. 






> GSE2034_clindata=getGSEDataTables("GSE2034")
No encoding supplied: defaulting to UTF-8.
Error in UseMethod("xpathApply") : 
  no applicable method for 'xpathApply' applied to an object of class "NULL"
In addition: Warning message:
In xmlRoot.XMLInternalDocument(xmlParseDoc(txt)) : empty XML document



> sessionInfo()
R version 3.3.1 (2016-06-21)
Platform: i386-w64-mingw32/i386 (32-bit)
Running under: Windows 8.1 x64 (build 9600)

[1] LC_COLLATE=English_United States.1252  LC_CTYPE=English_United States.1252    LC_MONETARY=English_United States.1252 LC_NUMERIC=C                          
[5] LC_TIME=English_United States.1252    

attached base packages:
[1] stats4    parallel  stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
 [1] hgu133ahsentrezg.db_20.0.0           hgu133ahsentrezgprobe_20.0.0 hgu133ahsentrezgcdf_20.0.0   AnnotationDbi_1.34.4        
 [6] IRanges_2.6.1                S4Vectors_0.10.2             gcrma_2.44.0                 affy_1.50.0                  GEOquery_2.38.4             
[11] Biobase_2.32.0               BiocGenerics_0.18.0          BiocInstaller_1.22.3        

loaded via a namespace (and not attached):
 [1] XVector_0.12.1        splines_3.3.1         zlibbioc_1.18.0       R6_2.1.2              httr_1.2.1            tools_3.3.1           DBI_0.5              
 [8] preprocessCore_1.34.0 affyio_1.42.0         bitops_1.0-6          curl_1.2              RCurl_1.95-4.8        RSQLite_1.0.0         Biostrings_2.40.2    
[15] XML_3.98-1.4         


ADD COMMENTlink written 18 months ago by Adrian Johnson330
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.2.0
Traffic: 272 users visited in the last hour