R help - Jun 2013 - install a package made using bioconductor package pdInfoBuilder

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.



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









	[[alternative HTML version deleted]]

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
>
>
>
>
>
>
>
>
>
> [[alternative HTML version deleted]]
>
> ______________________________________________ R-help at r-project.org
mailing
> list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the
posting
> guide http://www.R-project.org/posting-guide.html and provide commented,
> minimal, self-contained, reproducible code.
>

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