[BioC] Encrypting IDAT files using IDATreader

[Kasper Daniel Hansen]

You / we / someone should consider wrapping this into a more easy to
install package, together with crlmm::readIDAT (and in case there are
other Illumina parsing functions around, they could be included as
well).  What is the license for openssl?

Kasper

On Sat, Aug 25, 2012 at 3:12 PM, Mike Smith <grimbough at gmail.com> wrote:
> Hi Seungyeul,
>
> IDATreader's a pretty experimental package, but it's worked on the few
> systems I've tested it on.  The reliance on third party libraries is
> why I've not submitted it to Bioconductor, so they may be causing
> problems.
>
> I'm not sure why you're using source(), rather than loading the
> package via library().  Have you installed the package, or just
> unzipped it and grabbed the .R file?  It need to be installed in order
> to build the DLL and link against the decryption routines.  To do that
> you need to download the tar.gz from the website you linked to and
> then run
>
> R CMD INSTALL IDATreader_0.1.1.tar.gz
>
> in a terminal to installed the package.  You then need to load it using
>
> library(IDATreader)
>
> in your R session, rather than using source().
>
> Hopefully that's of some help,
>
> Mike
>
>
>
> On 22 August 2012 23:35, Yoo, Seungyeul <seungyeul.yoo at mssm.edu> wrote:
>> Hi all,
>>
>> I'm trying to analyze Illumina array of gene expression. The file format is .idat which is encrypted data.
>>
>> I downloaded IDATreader packages as Mike suggested in some of previous post. I also install openssl for my mac os x. http://www.compbio.group.cam.ac.uk/software/idatreader
>>
>> But when I tried to read idat file error message is prompted.
>>
>> source("/Library/R/readIDAT.R")
>> filenames<-dir(patter="idat")
>> idat<-readIDAT(file=filenames[1])
>>
>>> idat<-readIDAT(file=filenames[1])
>> Decrypting to XML
>> Error in .C("decryptSSL", as.character(file), as.character(tempFile),  :
>>   C symbol name "decryptSSL" not in DLL for package "IDATreader"
>>
>>> sessionInfo()
>> R version 2.15.0 (2012-03-30)
>> Platform: i386-apple-darwin9.8.0/i386 (32-bit)
>>
>> locale:
>> [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
>>
>> attached base packages:
>> [1] stats     graphics  grDevices utils     datasets  methods   base
>>
>> other attached packages:
>> [1] BiocInstaller_1.4.7
>>
>> loaded via a namespace (and not attached):
>> [1] tools_2.15.0
>>
>> Please let me have any advices to solve this problem.
>>
>> Seungyeul Yoo
>>
>> Postdoctoral Fellow
>> Jun Zhu's Laboratory
>> Institute of Genomics and Multiscale Biology
>> Department of Genetics and Genomic Sciences
>> Mount Sinai School of Medicine
>>
>>
>>
>>
>>
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>>
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>
>
>
> --
> Mike Smith
> PhD Student
> Computational Biology Group
> Cambridge University
>
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