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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