On 06/18/2013 04:06 PM, Johnson, Franklin Theodore wrote:
Dear maintainer,
I used bioconductor package, pdInfoBuilder, to make a microarray platform
annotation package.
I named this package, pd.pdinfo.gpl11164.ndf.txt. This "self-made package" is
to be used with oligo package.
Please ask questions about Bioconductor packages on the Bioconductor mailing
list.
http://bioconductor.org/help/mailing-list/mailform/
Please indicate how you built your pdInfo package, e.g., following the
instructions on the vignettes at
http://bioconductor.org/packages/release/bioc/html/pdInfoBuilder.html
Martin
Prior to using oligo package, I need to install the annotation package,
pd.pdinfo.gpl11164.ndf.txt, and cannot just copy it to the library tree.
I tried using the install.packages with various arguments, only to fail the
installation.
For example:
install.packages("pd.pdinfo.gpl11164.ndf.txt", lib="C:/Program
Files/R/R-3.0.1/library", destdir="C:/Users/ZHUGRP/Desktop/Yanmin's
Microarray Paper/Yanmin Microarray RAW/pdInfoBuilder").
I also tried to change the enviroment to .tar.gz, which also failed.
install.packages("pd.pdinfo.gpl11164.ndf.txt.tar.gz", lib="C:/Program
Files/R/R-3.0.1/library", destdir="C:/Users/ZHUGRP/Desktop/Yanmin's
Microarray Paper/Yanmin Microarray RAW/pdInfoBuilder", repos=NULL)
The pd.pdinfo.gpl11164.ndf.txt.tar.gz is located on my OS Windows 7 machine.
I am trying to install it from my machine, using R "Good Sport."
I've looked in manuals and FAQs with no success.
If possible, I know this is very straight forward, however, am I missing a
critical argument?
Hope to hear from you soon.
Regards,
Franklin
sessionInfo()
R version 3.0.1 (2013-05-16) Platform: i386-w64-mingw32/i386 (32-bit)
locale: [1] LC_COLLATE=English_United States.1252 LC_CTYPE=English_United
States.1252 LC_MONETARY=English_United States.1252 [4] LC_NUMERIC=C
LC_TIME=English_United States.1252
attached base packages: [1] parallel stats graphics grDevices utils
datasets methods base
loaded via a namespace (and not attached): [1] tools_3.0.1
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