Message-ID: <F904320E6997EB47A7A04A9661D6CF6D335C3D60@UWMBX01.uw.lu.se>
Date: 2012-09-12T14:36:37Z
From: Joao Fadista
Subject: SNPRelate package error
In-Reply-To: <EBC65BDDD81.00000D21jrkrideau@inbox.com>
Thanks for the reply. That was the problem. My getwd() was "C:/Windows/system32". I changed and now it works!
Best regards,
Jo?o Fadista, Ph.D.
Post Doc
Lund University Diabetes Centre
CRC, Malm? University Hospital
Jan Waldenstr?ms gata 35, building 60, level 13
SE-205 02 Malm?, Sweden
Tel: +46 (0)40 391237
e-mail: joao.fadista at med.lu.se
-----Original Message-----
From: John Kane [mailto:jrkrideau at inbox.com]
Sent: den 12 september 2012 15:13
To: Joao Fadista; r-help at r-project.org
Subject: RE: [R] SNPRelate package error
Are you sure that you have write permission to the directory that R is trying to write to?
John Kane
Kingston ON Canada
> -----Original Message-----
> From: joao.fadista at med.lu.se
> Sent: Wed, 12 Sep 2012 12:37:42 +0000
> To: r-help at r-project.org
> Subject: [R] SNPRelate package error
>
> Dear all,
>
> I am using the R package SNPRelate but I found an error when I run the
> following command. Do you know what might be the problem? Thanks in
> advance.
>
>
>> vcf.fn <- system.file("extdata", "sequence.vcf", package="SNPRelate")
>> snpgdsVCF2GDS(vcf.fn, "test.gds")
> Start snpgdsVCF2GDS ...
> Open
> C:/Users/med-jft/Documents/R/win-library/2.15/SNPRelate/extdata/sequence.vcf
> Scanning ...
> Error in createfn.gds(outfn.gds) :
> Can not create file 'test.gds'. Access is denied.
>
>> sessionInfo()
> R version 2.15.0 (2012-03-30)
> Platform: x86_64-pc-mingw32/x64 (64-bit)
>
> locale:
> [1] LC_COLLATE=Swedish_Sweden.1252 LC_CTYPE=Swedish_Sweden.1252
> LC_MONETARY=Swedish_Sweden.1252 LC_NUMERIC=C
> LC_TIME=Swedish_Sweden.1252
>
> attached base packages:
> [1] stats graphics grDevices utils datasets methods base
>
> other attached packages:
> [1] SNPRelate_0.9.7 gdsfmt_0.9.10
>
> loaded via a namespace (and not attached):
> [1] tools_2.15.0
>
> Best regards,
> Jo?o Fadista, Ph.D.
> Post Doc
>
> Lund University Diabetes Centre
> CRC, Malm? University Hospital
> Jan Waldenstr?ms gata 35, building 60, level 13
> SE-205 02 Malm?, Sweden
> Tel: +46 (0)40 391237
> e-mail: joao.fadista at med.lu.se
>
> ______________________________________________
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> 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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