unable to install bioconductor package
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Guest User ★ 13k
@guest-user-4897
Last seen 9.6 years ago
I have installed R(version 2.15.1)and want to install bioconductor package,whenever I execute the command :- source("http://www.bioconductor.org/biocLite.R") I am getting following output.plz help me out resolving this issue.plz note I am using proxy connection. -- output of sessionInfo(): > source("http://www.bioconductor.org/biocLite.R") Error in file(filename, "r", encoding = encoding) : cannot open the connection In addition: Warning message: In file(filename, "r", encoding = encoding) : unable to resolve 'www.bioconductor.org' > -- Sent via the guest posting facility at bioconductor.org.
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Dan Tenenbaum ★ 8.2k
@dan-tenenbaum-4256
Last seen 3.1 years ago
United States
Hi, On Tue, Oct 16, 2012 at 6:20 AM, mandar [guest] <guest at="" bioconductor.org=""> wrote: > > I have installed R(version 2.15.1)and want to install bioconductor package,whenever I execute the command :- > source("http://www.bioconductor.org/biocLite.R") > I am getting following output.plz help me out resolving this issue.plz note I am using proxy connection. > > -- output of sessionInfo(): > > >> source("http://www.bioconductor.org/biocLite.R") > Error in file(filename, "r", encoding = encoding) : > cannot open the connection > In addition: Warning message: > In file(filename, "r", encoding = encoding) : > unable to resolve 'www.bioconductor.org' >> > > It would help to have more information about your system, such as what operating system you are on. This is why we ask for the output of the sessionInfo() command. If you are on windows, try starting R as follows: R --internet2 This often helps with proxy problems. Dan > -- > Sent via the guest posting facility at bioconductor.org. > > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor
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@farahqureshi5-12184
Last seen 6.5 years ago

 Greetings!

 i am getting the same problem

source("https://bioconductor.org")
Error in file(filename, "r", encoding = encoding) : 
  cannot open the connection
In addition: Warning message:
In file(filename, "r", encoding = encoding) :
  InternetOpenUrl failed: 'A connection with the server could not be established'

sessionInfo()

R version 3.3.2 (2016-10-31)
Platform: i386-w64-mingw32/i386 (32-bit)
Running under: Windows 7 (build 7600)

locale:
[1] LC_COLLATE=English_United States.1252  LC_CTYPE=English_United States.1252   
[3] 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] GenomicFeatures_1.26.3     AnnotationDbi_1.36.2       DESeq2_1.14.1             
 [4] SummarizedExperiment_1.4.0 GenomicRanges_1.26.3       GenomeInfoDb_1.10.3       
 [7] IRanges_2.8.1              S4Vectors_0.12.1           affy_1.52.0               
[10] Biobase_2.34.0             BiocGenerics_0.20.0       

loaded via a namespace (and not attached):
 [1] RColorBrewer_1.1-2       checkmate_1.8.2          cluster_2.0.5           
 [4] magrittr_1.5             acepack_1.4.1            gtable_0.2.0            
 [7] zlibbioc_1.20.0          preprocessCore_1.36.0    memoise_1.0.0           
[10] Rsamtools_1.26.1         data.table_1.10.4        RCurl_1.95-4.8          
[13] base64enc_0.1-3          XVector_0.14.0           htmltools_0.3.5         
[16] stringr_1.2.0            genefilter_1.56.0        splines_3.3.2           
[19] BiocInstaller_1.24.0     Formula_1.2-1            lattice_0.20-34         
[22] rtracklayer_1.34.2       survival_2.40-1          annotate_1.52.1         
[25] htmlwidgets_0.8          plyr_1.8.4               locfit_1.5-9.1          
[28] Biostrings_2.42.1        GenomicAlignments_1.10.0 knitr_1.15.1            
[31] gridExtra_2.2.1          Matrix_1.2-8             digest_0.6.12           
[34] colorspace_1.3-2         geneplotter_1.52.0       stringi_1.1.2           
[37] lazyeval_0.2.0           Hmisc_4.0-2              RSQLite_1.1-2           
[40] tibble_1.2               affyio_1.44.0            rpart_4.1-10            
[43] backports_1.0.5          htmlTable_1.9            xtable_1.8-2            
[46] BiocParallel_1.8.1       munsell_0.4.3            DBI_0.6                 
[49] Rcpp_0.12.9              biomaRt_2.30.0           XML_3.98-1.5            
....

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