Hello,
I am trying to install affy package in R as follow:
>R CMD INSTALL -l lib ~/rstuffs/affy_1.4.32.tar.gz
Then I get an error at the end:
Warning message:
There is no package called 'Biobase' in: library(package,
character.only = TRUE, logical = TRUE, warn.conflicts = warn.conflicts,
[1] "ProgressBarText"
[1] "initialize"
[1] "open"
[1] "open"
[1] "update"
[1] "update"
[1] "close"
[1] "close"
Error in getClass(Class, where = topenv(parent.frame())) :
"MIAME" is not a defined class
Execution halted
/bioinfo/apps/lib/R/bin/INSTALL: line 1: 761 Broken pipe cat
"/home/sxv6413/rstuffs/lib/affy/R/affy"
ERROR: execution of package source for 'affy' failed
** Removing '/home/sxv6413/rstuffs/lib/affy'
I have also installed Biobase using the same command successfully
but when i go into R and type library() to see all the available packages,
I dont see Biobase package there.
Am i missing something here?
Since I am using Bioconductor, I also try to install packages
using getBioC() but I still get errors like:
Error in file(file, "r") unable to connect to
'www.bioconductor.org' on port 80.
If anyone has any advice on this, I will greatly appreciate.
Thanks,
Saran
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