R help - Dec 2005 - Extracting data from .zip file in WINDOWS version of package

Hello,

I am building a R-package for Genetics analysis. The accepted data is in
pedigree (.ped) file format.

To load the data (say CAMP.ped) from "data" directory, I have a
function "CAMP.R", which does the job.
The package builds successfully in Linux (.tar.gz) and the data loads
successfully by "data(CAMP)".

However, when I build the package in WINDOWS, the data directory is zipped, and
the command "data(CAMP)"
gives an error - 
Error in readGenes(gfile = "CAMP.ped",....)
Genotype file CAMP.ped does not exist.

While debugging "data(CAMP)", I found that only the file
"CAMP.R" is extracted temporarily, and not the file
"CAMP.ped" - which causes the error.

Linux version does not face this problem as the data directory is not zipped.

Could you please suggest a way around for this problem?

Thanks.

Best,
Nitin 
______________________
Nitin Jain, PhD
<nitin.jain at pfizer.com>
Non Clinical Statistics
Pfizer, Inc. (Groton, CT)
Bldg: 260, # 1451
Ph:  (860) 686-2526 (Office)
Fax: (860) 686-6170

----------------------------------------------------------------------
LEGAL NOTICE\ Unless expressly stated otherwise, this messag...{{dropped}}

On Tue, 20 Dec 2005, Jain, Nitin wrote:
> I am building a R-package for Genetics analysis. The accepted data is in
pedigree (.ped) file format.
>
> To load the data (say CAMP.ped) from "data" directory, I have a
function "CAMP.R", which does the job.
> The package builds successfully in Linux (.tar.gz) and the data loads
successfully by "data(CAMP)".
>
> However, when I build the package in WINDOWS, the data directory is zipped,
and the command "data(CAMP)"
> gives an error -
> Error in readGenes(gfile = "CAMP.ped",....)
> Genotype file CAMP.ped does not exist.
>
> While debugging "data(CAMP)", I found that only the file
"CAMP.R" is extracted temporarily, and not the file
> "CAMP.ped" - which causes the error.
>
> Linux version does not face this problem as the data directory is not
zipped.
Well, not zipped by default: it can be zipped.
> Could you please suggest a way around for this problem?
You need to read the `Writing R Extensions' manual and set the appropriate 
option in the DESCRIPTION file.  Search for 'ZipData'

-- 
Brian D. Ripley,                  ripley at stats.ox.ac.uk
Professor of Applied Statistics,  http://www.stats.ox.ac.uk/~ripley/
University of Oxford,             Tel:  +44 1865 272861 (self)
1 South Parks Road,                     +44 1865 272866 (PA)
Oxford OX1 3TG, UK                Fax:  +44 1865 272595

Dear Andy and Prof. Ripley,

Thank you very much for the suggestions. Tried the "ZipData" option,
and it solved my problem.
I think Andy's suggestion should also work, but haven't tried it yet.

I appreciate such a speedy response.

Best regards,
Nitin

______________________
Nitin Jain, PhD
<nitin.jain at pfizer.com>
Non Clinical Statistics
Pfizer, Inc. (Groton, CT)
Bldg: 260, # 1451
Ph:  (860) 686-2526 (Office)
Fax: (860) 686-6170



-----Original Message-----
From: Prof Brian Ripley [mailto:ripley at stats.ox.ac.uk]
Sent: Tuesday, December 20, 2005 2:15 PM
To: Jain, Nitin
Cc: r-help at stat.math.ethz.ch; ligges at statistik.uni-dortmund.de
Subject: Re: [R] Extracting data from .zip file in WINDOWS version of
package


On Tue, 20 Dec 2005, Jain, Nitin wrote:
> I am building a R-package for Genetics analysis. The accepted data is in
pedigree (.ped) file format.
>
> To load the data (say CAMP.ped) from "data" directory, I have a
function "CAMP.R", which does the job.
> The package builds successfully in Linux (.tar.gz) and the data loads
successfully by "data(CAMP)".
>
> However, when I build the package in WINDOWS, the data directory is zipped,
and the command "data(CAMP)"
> gives an error -
> Error in readGenes(gfile = "CAMP.ped",....)
> Genotype file CAMP.ped does not exist.
>
> While debugging "data(CAMP)", I found that only the file
"CAMP.R" is extracted temporarily, and not the file
> "CAMP.ped" - which causes the error.
>
> Linux version does not face this problem as the data directory is not
zipped.
Well, not zipped by default: it can be zipped.
> Could you please suggest a way around for this problem?
You need to read the `Writing R Extensions' manual and set the appropriate 
option in the DESCRIPTION file.  Search for 'ZipData'

-- 
Brian D. Ripley,                  ripley at stats.ox.ac.uk
Professor of Applied Statistics,  http://www.stats.ox.ac.uk/~ripley/
University of Oxford,             Tel:  +44 1865 272861 (self)
1 South Parks Road,                     +44 1865 272866 (PA)
Oxford OX1 3TG, UK                Fax:  +44 1865 272595
----------------------------------------------------------------------
LEGAL NOTICE\ Unless expressly stated otherwise, this messag...{{dropped}}